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A

About - Class in org.jbiowh.gui
This JDialog is the About Box $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-04 11:57:42 +0100 (Tue, 04 Dec 2012) $ $LastChangedRevision: 353 $
About(Frame, boolean) - Constructor for class org.jbiowh.gui.About
Creates new form About
ABSORPTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
AbstractController - Class in org.jbiowh.core.utility.controller
This class is used to have a check controller class for $Author$ $LastChangedDate$ $LastChangedRevision$
AbstractController() - Constructor for class org.jbiowh.core.utility.controller.AbstractController
 
AbstractDataSetView - Class in org.jbiowh.gui.component.panel
This JPanel is the abstract dataset entity type view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 396 $
AbstractDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.component.panel.AbstractDataSetView
Creates new form AbstractDataSetView
AbstractDefaultTool - Class in org.jbiowh.tools.defaultTools
This class is to parse the default options on the command line tool using JBioWH $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
AbstractDefaultTool() - Constructor for class org.jbiowh.tools.defaultTools.AbstractDefaultTool
 
AbstractJpaController<T> - Class in org.jbiowh.core.utility.controller
This Class is the abstract class to JPA controller
AbstractJpaController() - Constructor for class org.jbiowh.core.utility.controller.AbstractJpaController
 
AbstractKEGGJpaController<T> - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the Abstract KEGG Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-26 16:29:19 +0100 (Mon, 26 Nov 2012) $ $LastChangedRevision: 323 $
AbstractKEGGJpaController() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.AbstractKEGGJpaController
 
AbstractListView<T> - Class in org.jbiowh.gui.component.panel.list
This JPanel is the List View
AbstractListView(Collection<T>, JComponent) - Constructor for class org.jbiowh.gui.component.panel.list.AbstractListView
Creates new form AbstractListView
AbstractMIFJpaController<T> - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AbstractMIFJpaController() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
 
AbstractPFamJpaController<T> - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the AbstractPFam Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
AbstractPFamJpaController() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
 
ACC - Variable in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
ACC - Variable in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
ACTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.actions.jbiowh.CloseActionListener
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.actions.jbiowh.OpenActionListener
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.actions.jbiowh.SaveActionListener
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.actions.tabbedpanel.TabbedPanelCloseActionListener
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.RedoAction
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.UndoAction
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.BasicPopup
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupConstrainPanel
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupCreateTable
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupListView
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupResultTab
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupSearchConstrain
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupSQLEditor
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupSQLEditorTables
 
actionPerformed(ActionEvent) - Method in class org.jbiowh.gui.component.popup.PopupSQLSchema
 
ACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
 
add(Object, Object) - Method in class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Add a data
addActionListener(ActionListener) - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
addColumn(String, String, boolean, boolean, boolean, boolean, Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Add a column to the handler.
addColumn(String, String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Add a column to the index.
addConstrains(Object) - Method in class org.jbiowh.gui.component.panel.BasicConstrain
Add a Constrain object to the Constrain Table
addEditCell() - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Add a edit row
addEntity(Class) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Add a JBioWH entity to be inserted on the JBioWH copy process
addEntity(Object) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Add a JBioWH entity to be inserted on the JBioWH copy process
addEntity(Object, EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Add a JBioWH entity to be inserted on the JBioWH copy process
addIndex(String, String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Add an index to the handler.
addJGraphTEdge(E) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
addJGraphTVertex(V) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
addJpaRelationshipGraph(Class, EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Add to the graph the entities classes relationship for this class
addNewTables(WHDBMSFactory) - Method in class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
Add new tables to the selected factory
addObject(Object) - Method in class org.jbiowh.gui.component.panel.result.ResultPanel
Add child to the currently selected node.
addObject(Object) - Method in class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
Add child to the currently selected node.
addObject(Object, WHDBMSFactory) - Method in class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
Add child to the currently selected node.
addObject(Object) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Add child to the currently selected node.
addObject(DefaultMutableTreeNode, Object) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Add child to the currently selected node.
addObject(DefaultMutableTreeNode, Object, boolean) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Add child to the currently selected node.
addResult(Object) - Method in class org.jbiowh.core.utility.utils.SavedResults
Add a result Object to the saved result list
addRow(List<Object>) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
Add an extra row of data to table model
addRow(String, String) - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Add an extra row of data to table model
addRow(String, String) - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
Add an extra row of data to table model
addRow(String, String, boolean, boolean, boolean, boolean, Object) - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
Add an extra row of data to table model
addRow(List<Object>) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
Add an extra row of data to table model
addRow(List<Object>) - Method in class org.jbiowh.gui.component.table.model.ListTableModel
Add an extra row of data to table model
AFFECTEDORGANISM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AffectedOrganismsTags
 
AFFECTEDORGANISMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AffectedOrganismsTags
 
AffectedOrganismsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is Affected Organisms XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
AHFSCODE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AHFSCodesTags
 
AHFSCODES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AHFSCodesTags
 
AHFSCodesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the AHFSCodes XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ALL_REAC - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
Alt - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
 
Alt() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Alt
 
alt - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
 
alt - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
 
ALTID - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
AntibioticGeneNeighbors - Class in org.jbiowh.tools.examples
Identify the genes encoding for antibiotic targets in the chromosomal neighborhood (of +/- number of neighbors genes) for the geneId gene.

As an example, we will use gene spr0328 (GeneId: 934804) from Streptococcus pneumoniae R6 which encodes for Endo-alpha-N-acetylgalactosaminidase (Q8DR60).

The result shows 1 gene, 934791 that encodes for protein Q8DR59 which is an antibiotic target for Oxacillin, Hetacillin, Nafcillin, Ampicillin, Cefalotin, Azidocillin, Cefotaxime, Cefoxitin and Cephalexin.

$Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 459 $
AntibioticGeneNeighbors() - Constructor for class org.jbiowh.tools.examples.AntibioticGeneNeighbors
 
antibioticGeneNeighbors() - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighbors
Identify the genes encoding for antibiotic targets in the chromosomal neighborhood (of +/- number of neighbors genes) for the geneId gene.
AntibioticGeneNeighborTax - Class in org.jbiowh.tools.examples
Identify the respective antibiotic target genes from a Taxonomy.
AntibioticGeneNeighborTax() - Constructor for class org.jbiowh.tools.examples.AntibioticGeneNeighborTax
 
antibioticGeneNeighborTax() - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighborTax
Identify the respective antibiotic target genes from a Taxonomy.
APPROVED - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
ATCCODE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ATCCodesTags
 
ATCCODES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ATCCodesTags
 
ATCCodesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the ATCCodes XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
AttributeList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML AttributeList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AttributeList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
This constructor initialize the WH file manager and the WH DataSet manager
AttributeListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML AttributeList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AttributeListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.AttributeListTags
 
AV - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
Availability - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Availability Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Availability() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Availability
This constructor initialize the WH file manager and the WH DataSet manager
AvailabilityList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML AvailabilityList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AvailabilityList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
This constructor initialize the WH file manager and the WH DataSet manager
AvailabilityListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML AvailabilityList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AvailabilityListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.AvailabilityListTags
 
AvailabilityTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Availability Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
AvailabilityTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.AvailabilityTags
 

B

BasicConstrain - Class in org.jbiowh.gui.component.panel
This Class provides the basic constrain functions $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
BasicConstrain() - Constructor for class org.jbiowh.gui.component.panel.BasicConstrain
 
BasicEdge - Class in org.jbiowh.core.utility.jparelationship.graph
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-27 15:25:50 +0100 (Wed, 27 Mar 2013) $ $LastChangedRevision: 515 $
BasicEdge() - Constructor for class org.jbiowh.core.utility.jparelationship.graph.BasicEdge
 
BasicPopup - Class in org.jbiowh.gui.component.popup
This Class is the basic Popup $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
BasicPopup(JComponent) - Constructor for class org.jbiowh.gui.component.popup.BasicPopup
Create the basic popup
bgcolor - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
Bibref - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Bibref Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Bibref() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
This constructor initialize the WH file manager and the WH DataSet manager
BibrefTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Bibref Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
BibrefTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.BibrefTags
 
BioSourceType - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML HostOrganism Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
BioSourceType(String) - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
This constructor initialize the WH file manager and the WH DataSet manager
BioSourceTypeTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML BioSourceType Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
BioSourceTypeTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.BioSourceTypeTags
 
BIOTRANSFORMATION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
BioWHGraph - Class in org.jbiowh.core.utility.graph
This class creates a graph from any JBioWH main entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-27 15:25:50 +0100 (Wed, 27 Mar 2013) $ $LastChangedRevision: 521 $
BioWHGraph() - Constructor for class org.jbiowh.core.utility.graph.BioWHGraph
Creates a BioWHGraph The depth is set to 0 and the Graph is created as an undirected graph
BioWHGraph(ListenableGraph) - Constructor for class org.jbiowh.core.utility.graph.BioWHGraph
Creates a BioWHGraph
BioWHGraph(int) - Constructor for class org.jbiowh.core.utility.graph.BioWHGraph
Creates a BioWHGraph The Graph is created as an undirected graph
BioWHGraph(int, ListenableGraph) - Constructor for class org.jbiowh.core.utility.graph.BioWHGraph
Creates a BioWHGraph
BioWHPattern - Class in org.jbiowh.core.utility.utils
This class is for BioWH pattern match $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
BioWHTime - Class in org.jbiowh.core.utility.utils
This Class is to print time $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
BondType - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the BondType XML parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
BondType(String, String, String, String, boolean) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
This constructor initialize the WH file manager and the WH DataSet manager
BondTypeTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the BondType XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
BRAND - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BrandsTags
 
BRANDS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BrandsTags
 
BrandsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Brands XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $

C

CALCULATEDPROPERTIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CalculatedPropertiesTags
 
CalculatedPropertiesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the CalculatedProperties XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
CARRIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CarriersTags
 
CARRIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CarriersTags
 
CarriersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Carriers XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
CAS - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
CASNUMBER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
CATEGORIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CategoriesTags
 
CategoriesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
CATEGORY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CategoriesTags
 
CATEGORY - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
CD - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
CHAIN - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SequenceTypeTags
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
 
characters(char[], int, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
 
characters(char[], int, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Availability
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVType
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Entry
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.EntrySet
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Feature
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
This is the characters method
characters(char[], int, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.MIF25DefaultHandler
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Participant
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Source
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Xref
This is the characters method
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Entry
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
 
characters(char[], int, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefDefaultHandler
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefXML
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Comment
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Entry
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Feature
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Gene
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Interactant
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Isoform
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Keyword
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
characters(String, String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
 
characters(char[], int, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.UniprotDefaultHandler
 
charactersGOHeader(String, String, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOHeader
 
charactersGOTerm(String, String, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOTerm
 
Chromosome - Class in org.jbiowh.core.datasets.gene.utils
This Class handled Chromosome PTT $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 515 $
Chromosome() - Constructor for class org.jbiowh.core.datasets.gene.utils.Chromosome
Creates the Chromosome
Chromosome() - Method in class org.jbiowh.tools.gene.FindGenefromProteinGi
Read a file with the proteinGi id from Gene and print the PTT table for this chromosome with a number of pb up and down
CITATIONSFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
CITTAX - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
CITTAXFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
CLASS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
CLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
CLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
CLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
clear() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Clear the chromosome gene list
clear() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
 
clear() - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Remove all nodes except the root node.
CLEARANCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
CLOSE_ICON - Variable in class org.jbiowh.gui.component.icons.IconFetch
The close icon to be used on the tabs
CloseActionListener - Class in org.jbiowh.gui.actions.jbiowh
This class is the close action for the main window $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
CloseActionListener(JBioWH) - Constructor for class org.jbiowh.gui.actions.jbiowh.CloseActionListener
Creates the close action for the main window
closeAll() - Method in class org.jbiowh.core.dbms.WHDBMS
Close all active connections
closeAllPrintWriter() - Method in class org.jbiowh.core.utility.utils.ParseFiles
Close all created files
closeConnection() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Close the connection with the DBMS database
closeConnection() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Close the connection with the DBMS database
closeConnection() - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Close the connection with the DBMS
ClosePanel - Class in org.jbiowh.gui.component.panel.tabbedpanel
This JPanel is the Close panel for JTabbedPanel $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 273 $
ClosePanel(JTabbedPane, String, UUID, ActionListener) - Constructor for class org.jbiowh.gui.component.panel.tabbedpanel.ClosePanel
Creates new form ClosePanel
closeSchema(boolean) - Method in class org.jbiowh.core.dbms.WHDBMS
Close the main schema
closeSchema(String, boolean) - Method in class org.jbiowh.core.dbms.WHDBMS
Close the schema using its URL
closeSchema(WHDBMSFactory, boolean) - Method in class org.jbiowh.core.dbms.WHDBMS
Close the schema using its WHDBMSFactory
CN - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
CODE - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
COFACTOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
COG - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
collapsePathFromLevel(int) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Collapse the tree from the level
collectionFieldContains(String, T) - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Perform the search over the collection selected field
COMMENT - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
COMMENT - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
COMMENT - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
COMMENT - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
Comment - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Comment tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Comment() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Comment
This constructor initialize the WH file manager and the WH DataSet manager
CommentTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Comment tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
CommentTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
compare(GenePTT, GenePTT) - Method in class org.jbiowh.core.datasets.gene.utils.GenePTTComparator
 
Component - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Component XML parser from JAXB for KGML file format
Component() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Component
 
component - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
COMPOSITION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
COMPOUND - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
Confidence - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Confidence Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Confidence() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
This constructor initialize the WH file manager and the WH DataSet manager
ConfidenceList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ConfidenceList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ConfidenceList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
This constructor initialize the WH file manager and the WH DataSet manager
ConfidenceListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ConfidenceList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ConfidenceListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceListTags
 
ConfidenceTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Confidence Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ConfidenceTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceTags
 
Conflict - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Conflict tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Conflict() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Conflict
This constructor initialize the WH file manager and the WH DataSet manager
ConflictTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Conflict tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ConflictTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
ConstrainPanel - Class in org.jbiowh.gui.component.panel
This JPanel is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-08 15:29:16 +0200 (Mon, 08 Oct 2012) $ $LastChangedRevision: 396 $
ConstrainPanel(JComponent) - Constructor for class org.jbiowh.gui.component.panel.ConstrainPanel
Creates new form ConstrainPanel
ConstrainPanel(JPLConstrains, JComponent) - Constructor for class org.jbiowh.gui.component.panel.ConstrainPanel
Creates new form ConstrainPanel
ConstrainsTableModel - Class in org.jbiowh.gui.component.table.model
This class is the Table Model based on Constrains $Author$ $LastChangedDate$ $LastChangedRevision$
ConstrainsTableModel(JPLConstrains, String[], Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
containsColumnName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return true if the handler contains a column with name: name
containsIndexName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return true if the handler contains an index with name: name
containsVertex(Object) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Return true if the graph contains the object as vertex
coords - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
COST - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
countElements() - Method in class org.jbiowh.tools.dataset.DataSetReport
 
COUNTRY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
countTablesRow(List<String>) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
countTablesRow(List<String>) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
This method return in a String format the table's number of rows
create(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
create(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
create(PfamArchitecture) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
create(PfamARegFullInsignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
create(PfamARegFullSignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
create(PfamBbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
create(PfamClans) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
create(PfamCompleteProteomes) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
create(PfamLiteratureReferences) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
create(PfamProteomeRegions) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
create(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
create(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
create(GenePTT) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
create(DataSet) - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Creates a DataSet entity
create(WidTable) - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Creates a WidTable entity
create(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
create(OntologySynonym) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
create(KEGGCompound) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
create(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
create(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
create(KEGGGlycan) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
create(KEGGPathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
create(KEGGReaction) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
create(KEGGRPair) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
create(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
create(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
create(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
create(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
create(MIFEntrySet) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
create(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
create(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
create(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
create(UniRefEntry) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
create(UniRefMember) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
create(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
create(ProteinKeyword) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
create(Taxonomy) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
createAllExternalJpaRelationship(EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Create a graph with all entities classes relationship
createAlt() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Alt
createCanEdit() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Create the Edit array
createChromosomeFromGeneId(Long) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome List (chromosome) from one of its genes
createChromosomeFromGeneInfo(Long) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome from one of its genes
createChromosomeFromGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome from one of its genes
createChromosomeFromGenePTT(GenePTT) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome List (chromosome) from one of its genes
createChromosomeFromParm(HashMap) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome from one its PTT file name
createChromosomeFromProteinGi(Long) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome from one of its proteinGi
createChromosomeFromPTTFile(String) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome List (chromosome) from one its PTT file name
createChromosomeFromTaxonomy(Long) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Create a Chromosome from one of its genes
createClass() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Create the Class array to build the Table
createComponent() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Component
createController() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
 
createController() - Method in class org.jbiowh.core.utility.controller.AbstractController
Creates the JPA controller
CREATED - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
createDataSet(EntityManagerFactory, EntityManager, DataSet) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the DataSet the be persisted
createDrugBank(EntityManagerFactory, EntityManager, Set<DrugBank>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the DrugBank list the be persisted
createEdit(int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Creates the edit list for a number of rows
createEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Entry
createExternalJpaRelationshipGraph(Class, EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Create a graph for the entities classes starting on the target entity class
createGeneInfo(EntityManagerFactory, EntityManager, Set<GeneInfo>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the GeneInfo list the be persisted
createGraphics() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Graphics
createJMenu(String) - Method in class org.jbiowh.gui.component.popup.BasicPopup
Create a JMenu on this popup
createJMenuItem(String, int, int) - Method in class org.jbiowh.gui.component.popup.BasicPopup
Create a JMenuItem on this popup
createJTableHeader() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Create the Table Header
createJTableHeader() - Method in class org.jbiowh.gui.datasets.disease.OMIMListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.drug.DrugBankListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.gene.GeneInfoListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.gene.GenePTTListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.ontology.OntologyListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.protein.ProteinListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.protfam.UniRefEntryListView
 
createJTableHeader() - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyListView
 
createKEGGCompound(EntityManagerFactory, EntityManager, Set<KEGGCompound>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the KEGGCompound list the be persisted
createKEGGEnzyme(EntityManagerFactory, EntityManager, Set<KEGGEnzyme>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the KEGGEnzyme list the be persisted
createKEGGGene(EntityManagerFactory, EntityManager, Set<KEGGGene>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the KEGGGene list the be persisted
createKEGGGlycan(EntityManagerFactory, EntityManager, Set<KEGGGlycan>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.AbstractKEGGJpaController
Return the KEGGGlycan list the be persisted
createKEGGPathway(EntityManagerFactory, EntityManager, Set<KEGGPathway>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the KEGGPathway list the be persisted
createKEGGReaction(EntityManagerFactory, EntityManager, Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.AbstractKEGGJpaController
Return the KEGGReaction list the be persisted
createMIFEntryExperiment(EntityManagerFactory, EntityManager, Set<MIFEntryExperiment>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntryExperiment list the be persisted
createMIFEntryExperiment(EntityManagerFactory, EntityManager, MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntryExperiment object the be persisted
createMIFEntryInteraction(EntityManagerFactory, EntityManager, MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntryInteraction list the be persisted
createMIFEntryInteraction(EntityManagerFactory, EntityManager, Set<MIFEntryInteraction>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the MIFEntryInteraction list the be persisted
createMIFEntryInteractor(EntityManagerFactory, EntityManager, Set<MIFEntryInteractor>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntryInteractor list the be persisted
createMIFEntryInteractor(EntityManagerFactory, EntityManager, MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntryInteractor object the be persisted
createMIFEntrySetEntry(EntityManagerFactory, EntityManager, MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntrySetEntry list the be persisted
createMIFEntrySetEntry(EntityManagerFactory, EntityManager, Set<MIFEntrySetEntry>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntrySetEntry list the be persisted
createMIFEntrySource(EntityManagerFactory, EntityManager, Set<MIFEntrySource>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFEntrySource list the be persisted
createMIFInteractionParticipant(EntityManagerFactory, EntityManager, Set<MIFInteractionParticipant>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFInteractionParticipant list the be persisted
createMIFInteractionParticipant(EntityManagerFactory, EntityManager, MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFInteractionParticipant object the be persisted
createMIFOtherAlias(EntityManagerFactory, EntityManager, Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherAlias list the be persisted
createMIFOtherAttribute(EntityManagerFactory, EntityManager, Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherAttribute list the be persisted
createMIFOtherBibRef(EntityManagerFactory, EntityManager, Set<MIFOtherBibRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherBibRef list the be persisted
createMIFOtherBioSourceType(EntityManagerFactory, EntityManager, Set<MIFOtherBioSourceType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherBioSourceType list the be persisted
createMIFOtherConfidence(EntityManagerFactory, EntityManager, Set<MIFOtherConfidence>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherConfidence list the be persisted
createMIFOtherXRef(EntityManagerFactory, EntityManager, Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherXRef list the be persisted
createMIFOtherXRefGO(EntityManagerFactory, EntityManager, Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherXRefGO list the be persisted
createMIFOtherXRefPubMed(EntityManagerFactory, EntityManager, Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherXRefPubMed list the be persisted
createMIFOtherXRefRefSeq(EntityManagerFactory, EntityManager, Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherXRefRefSeq list the be persisted
createMIFOtherXRefUniprot(EntityManagerFactory, EntityManager, Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.AbstractMIFJpaController
Return the MIFOtherXRefUniprot list the be persisted
createNamedQuery(String) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method create and perform the NamedQuery over the selected entity
createNamedQuery(String, int[]) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method create and perform the NamedQuery over the selected entity
createNamedQuery(String, HashMap<String, Object>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method create and perform the NamedQuery over the selected entity with defined parameters
createNamedQuery(String, HashMap<String, Object>, int[]) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method create and perform the NamedQuery over the selected entity with defined parameters
createOntology(EntityManagerFactory, EntityManager, Set<Ontology>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the Ontology list the be persisted
createPathway() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Pathway
createPfamA(EntityManagerFactory, EntityManager, PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamAbioWH the be persisted
createPfamA(EntityManagerFactory, EntityManager, Set<PfamAbioWH>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the PfamAbioWH list the be persisted
createPfamArchitecture(EntityManagerFactory, EntityManager, Set<PfamArchitecture>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamArchitectures list the be persisted
createPfamARegFullInsignificant(EntityManagerFactory, EntityManager, Set<PfamARegFullInsignificant>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamARegFullInsignificant list the be persisted
createPfamARegFullSignificant(EntityManagerFactory, EntityManager, Set<PfamARegFullSignificant>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamARegFullSignificant list the be persisted
createPfamClans(EntityManagerFactory, EntityManager, Set<PfamClans>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamClans list the be persisted
createPfamCompleteProteomes(EntityManagerFactory, EntityManager, PfamCompleteProteomes) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamCompleteProteomes list the be persisted
createPfamLiteratureReferences(EntityManagerFactory, EntityManager, Set<PfamLiteratureReferences>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamLiteratureReferences list the be persisted
createPfamProteomeRegions(EntityManagerFactory, EntityManager, Map<PfamProteomeRegionsPK, PfamProteomeRegions>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.AbstractPFamJpaController
Return the PfamProteomeRegions list the be persisted
createPrimaryKey() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Creates the Primary Key from the columns
createProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Product
createProtein(EntityManagerFactory, EntityManager, Set<Protein>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the Protein list the be persisted
createReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Reaction
createRelation() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Relation
CreateSchemaDialog - Class in org.jbiowh.gui.sqltables
This JDialog is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 396 $
CreateSchemaDialog(Frame, boolean, WHDBMSFactory) - Constructor for class org.jbiowh.gui.sqltables.CreateSchemaDialog
Creates new form CreateSchemaDialog
createSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Substrate
createSubtype() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create an instance of Subtype
CreateTable - Class in org.jbiowh.gui.sqltables
This JDialog handled the SQL table creation process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTable(Frame, boolean, WHDBMSFactory) - Constructor for class org.jbiowh.gui.sqltables.CreateTable
Creates new form CreateTable
CreateTableColumnListener - Class in org.jbiowh.gui.sqltables.listener
This Class is the Table ModeListener fro the Index Column tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableColumnListener(JComboBox) - Constructor for class org.jbiowh.gui.sqltables.listener.CreateTableColumnListener
 
CreateTableColumnModel - Class in org.jbiowh.gui.component.table.model
This Class is the table model to create a table index column $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableColumnModel(String[], SQLTable, Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Create a table model for the SQL create table index column table
CreateTableIndexlListener - Class in org.jbiowh.gui.sqltables.listener
This Class is the Table ModeListener fro the Index tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableIndexlListener(CreateTableColumnModel) - Constructor for class org.jbiowh.gui.sqltables.listener.CreateTableIndexlListener
 
CreateTableIndexModel - Class in org.jbiowh.gui.component.table.model
This Class is the table model to create a table index $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableIndexModel(String[], SQLTable, Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.CreateTableIndexModel
Create a table model for the SQL create table index table
CreateTableListener - Class in org.jbiowh.gui.sqltables.listener
This Class is the Table ModeListener fro the Column tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableListener(JTabbedPane, CreateTableIndexModel) - Constructor for class org.jbiowh.gui.sqltables.listener.CreateTableListener
 
CreateTableModel - Class in org.jbiowh.gui.component.table.model
This Class is the table model to create a table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
CreateTableModel(String[], SQLTable, Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.CreateTableModel
Create a table model for the SQL create table process
createTaxonomy(EntityManagerFactory, EntityManager, Taxonomy) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the Taxonomy the be persisted
createUniqueKey() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Creates the Unique Key from the columns
createUniRefEntry(EntityManagerFactory, EntityManager, Set<UniRefEntry>, Protein) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the UniRefEntry list the be persisted
createUniRefMember(EntityManagerFactory, EntityManager, Set<UniRefMember>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
Return the UniRefMember list the be persisted
CS - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
CURRENCY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
currentTime() - Method in class org.jbiowh.core.utility.utils.BioWHTime
 
currentTime(String) - Method in class org.jbiowh.core.utility.utils.BioWHTime
 
CVType - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML cvType Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
CVType(String) - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.CVType
This constructor initialize the WH file manager and the WH DataSet manager
CVTypeList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML CVTypeList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
CVTypeList(String, String) - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
This constructor initialize the WH file manager and the WH DataSet manager

D

DataSet - Class in org.jbiowh.core.datasets.mainloader.entities
This Class is the DataSet entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
DataSet() - Constructor for class org.jbiowh.core.datasets.mainloader.entities.DataSet
Creates a dataSet entity
DataSet(Long) - Constructor for class org.jbiowh.core.datasets.mainloader.entities.DataSet
Creates a dataSet entity with an id
DataSet(Long, String, Date, String) - Constructor for class org.jbiowh.core.datasets.mainloader.entities.DataSet
Creates a dataSet entity with the parameters
DataSetFactory - Class in org.jbiowh.core.datasets.mainloader
This Class extends DataSet for new informations $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DataSetJpaController - Class in org.jbiowh.core.datasets.mainloader.controller
This Class is the DataSet entity JPA controller class $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 322 $
DataSetJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Creates a DataSet JPA Controller and initialize the EntityManagerFactory
DataSetLoader - Class in org.jbiowh.core.datasets.mainloader
This Class to start parsing from the command line the data sources $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 396 $
DataSetLoader() - Constructor for class org.jbiowh.core.datasets.mainloader.DataSetLoader
 
dataSetLoader() - Method in class org.jbiowh.core.datasets.mainloader.DataSetLoader
 
dataSetObject - Variable in class org.jbiowh.gui.component.panel.AbstractDataSetView
The dataset entity type
DataSetReport - Class in org.jbiowh.tools.dataset
This class is generate a report of one DataSet $Author$ $LastChangedDate$ $LastChangedRevision$
DataSetReport() - Constructor for class org.jbiowh.tools.dataset.DataSetReport
 
DataSetsTables - Class in org.jbiowh.core.datasets.mainloader
This Class is return all Tables included into the relational schema $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DataTypeComboBoxEditor - Class in org.jbiowh.gui.sqltables.listener
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
DataTypeComboBoxEditor(Dimension) - Constructor for class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
DBLINKDB - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
DBLINKDB - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
DBLINKDB - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
DBLINKDB - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
DBLINKID - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
DBLINKID - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
DBLINKID - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
DBLINKID - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
DBLINKS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
DBREFERENCE - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.MemberTypeTags
 
DBReference - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the dbReference tgs on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
DBReference() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.DBReference
This constructor initialize the WH file manager and the WH DataSet manager
DBReferenceTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the Uniprot XML dbReference Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DBReferenceTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
DEBUG - Variable in class org.jbiowh.core.logger.VerbLogger
This is the debug message information level
DEFINITION - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
DEFINITION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
DEFINITION - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
depth - Variable in class org.jbiowh.core.utility.graph.BioWHGraph
The recursivity depth limit
DESCRIPTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugInteractionsTags
 
DESCRIPTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
DESCRIPTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
DESCRIPTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
DESCRIPTION - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
destroy(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
destroy(PfamProteomeRegionsPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Destroy a DataSet entity object from its Id
destroy(Long) - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Destroy a WidTable entity from its Id
destroy(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
destroy(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
DISEASE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
DISEASEENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
DISEASENAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
dispose() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Removes this MenuScroller from the associated menu and restores the default behavior of the menu.
DIVISIONFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
DIVISIONTEMP - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
DOSAGE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
 
DOSAGES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
 
DosagesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Dosages XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
doubleMouseClicked(MouseEvent) - Method in class org.jbiowh.gui.component.panel.result.ResultPanel
 
doubleMouseClicked(MouseEvent) - Method in class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
 
doubleMouseClicked(MouseEvent) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Provides the Mouse Click action
dropTable(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Drop the table on the DBMS
dropTable(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Drop the table on the DBMS
Drug - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the Drug XMl parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Drug() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
This constructor initialize the WH file manager and the WH DataSet manager
DRUG - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugInteractionsTags
 
DRUG - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
DRUG_TARGET - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
DrugBank - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBank entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
DrugBank() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
DrugBank(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
DrugBank(Long, String, String, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
DRUGBANK - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANK_HAS_DRUGBANKCATEGORIES - Static variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANK_HAS_DRUGBANKPATENTS - Static variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANK_ID - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
DrugBankAffectedOrganisms - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankAffectedOrganisms entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankAffectedOrganisms() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
DrugBankAffectedOrganisms(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
DrugBankAffectedOrganisms(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
DRUGBANKAFFECTEDORGANISMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankAHFSCodes - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankAHFSCodes entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankAHFSCodes() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
DrugBankAHFSCodes(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
DrugBankAHFSCodes(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
DRUGBANKAHFSCODES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankATCCodes - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankATCCodes entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankATCCodes() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
DrugBankATCCodes(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
DrugBankATCCodes(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
DRUGBANKATCCODES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankBrands - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankBrands entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankBrands() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
DrugBankBrands(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
DrugBankBrands(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
DRUGBANKBRANDS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankCalculatedProperties - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankCalculatedProperties entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankCalculatedProperties() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
DrugBankCalculatedProperties(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
DrugBankCalculatedProperties(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
DRUGBANKCALCULATEDPROPERTIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankCarriers - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankCarriers entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankCarriers() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
DrugBankCarriers(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
DrugBankCarriers(Long, long, int) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
DRUGBANKCARRIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankCarriersActions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankCarriersActions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankCarriersActions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
DrugBankCarriersActions(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
DrugBankCarriersActions(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
DRUGBANKCARRIERSACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankCarriersRef - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankCarriersRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankCarriersRef() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
DrugBankCarriersRef(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
DrugBankCarriersRef(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
DRUGBANKCARRIERSREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankCategories - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankCategories entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankCategories() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
DrugBankCategories(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
DRUGBANKCATEGORIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKCATEGORIESTEMP - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankDataSetView - Class in org.jbiowh.gui.datasets.drug
This Class handled the DrugBank View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DrugBankDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.drug.DrugBankDataSetView
Creates new form AbstractDataSetView
DrugBankDefaultHandler - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the DrugBank XML DefaultHandler $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankDefaultHandler(Drugs) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
DrugBankDosages - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankDosages entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankDosages() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
DrugBankDosages(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
DrugBankDosages(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
DRUGBANKDOSAGES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankDrugInteractions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This Class is the DrugBank Drug Interactions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankDrugInteractions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
DrugBankDrugInteractions(DrugBankDrugInteractionsPK) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
DrugBankDrugInteractions(long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
DRUGBANKDRUGINTERACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
drugBankDrugInteractionsPK - Variable in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
DrugBankDrugInteractionsPK - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This Class is the DrugBankDrugInteractions PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankDrugInteractionsPK() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
DrugBankDrugInteractionsPK(long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
DRUGBANKDRUGINTERACTIONSTEMP - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankEnzymes - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankEnzymes entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankEnzymes() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
DrugBankEnzymes(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
DrugBankEnzymes(Long, long, int) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
DRUGBANKENZYMES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankEnzymesActions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankEnzymesActions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankEnzymesActions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
DrugBankEnzymesActions(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
DrugBankEnzymesActions(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
DRUGBANKENZYMESACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankEnzymesRef - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankEnzymesRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankEnzymesRef() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
DrugBankEnzymesRef(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
DrugBankEnzymesRef(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
DRUGBANKENZYMESREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankExperimentalProperties - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankExperimentalProperties entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankExperimentalProperties() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
DrugBankExperimentalProperties(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
DrugBankExperimentalProperties(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
DRUGBANKEXPERIMENTALPROPERTIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankExternalIdentifiers - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankExternalIdentifiers entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankExternalIdentifiers() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
DrugBankExternalIdentifiers(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
DrugBankExternalIdentifiers(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
DRUGBANKEXTERNALIDENTIFIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankExternalLinks - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankExternalLinks entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankExternalLinks() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
DrugBankExternalLinks(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
DrugBankExternalLinks(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
DRUGBANKEXTERNALLINKS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankFoodInteractions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankFoodInteractions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankFoodInteractions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
DrugBankFoodInteractions(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
DrugBankFoodInteractions(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
DRUGBANKFOODINTERACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankGeneralRef - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankGeneralRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankGeneralRef() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
DrugBankGeneralRef(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
DrugBankGeneralRef(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
DRUGBANKGENERALREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankGroup - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankGroup entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankGroup() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
DrugBankGroup(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
DrugBankGroup(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
DRUGBANKGROUP - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKID - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
DrugBankJpaController - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.controller
This class is the DrugBank Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DrugBankJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
DrugBankLinks - Class in org.jbiowh.core.datasets.drug.drugbank.parser.links
This class is create all DrugBank external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DrugBankLinks() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.links.DrugBankLinks
 
DrugBankListView - Class in org.jbiowh.gui.datasets.drug
This Class show the DrugBank list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankListView(Collection<DrugBank>, JComponent) - Constructor for class org.jbiowh.gui.datasets.drug.DrugBankListView
Create the DrugBankListView object
DrugBankManufacturers - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankManufacturers entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankManufacturers() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
DrugBankManufacturers(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
DrugBankManufacturers(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
DRUGBANKMANUFACTURERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankMixtures - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankMixtures entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankMixtures() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
DrugBankMixtures(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
DrugBankMixtures(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
DRUGBANKMIXTURES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankPackagers - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankPackagers entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankPackagers() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
DrugBankPackagers(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
DrugBankPackagers(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
DRUGBANKPACKAGERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankParser - Class in org.jbiowh.core.datasets.drug.drugbank.parser
This class is the DrugBank Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DrugBankParser() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankParser
 
DRUGBANKPARTNEREXTERNALIDENTIFIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKPARTNERPFAM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKPARTNERREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKPARTNERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKPARTNERSYNONYMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankPatents - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankPatents entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankPatents() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
DrugBankPatents(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
DrugBankPatents(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
DRUGBANKPATENTS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGBANKPATENTSTEMP - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankPrices - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankPrices entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankPrices() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
DrugBankPrices(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
DrugBankPrices(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
DRUGBANKPRICES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankProteinLink - Class in org.jbiowh.core.datasets.drug.drugbank.parser.links
This Class populates the PROTEIN_HAS_DRUGBANK relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
DrugBankProteinSequences - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankProteinSequences entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankProteinSequences() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
DrugBankProteinSequences(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
DrugBankProteinSequences(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
DRUGBANKPROTEINSEQUENCES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankSecondAccessionNumbers - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankSecondAccessionNumbers entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankSecondAccessionNumbers() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
DrugBankSecondAccessionNumbers(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
DrugBankSecondAccessionNumbers(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
DRUGBANKSECONDACCESSIONNUMBERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankSplitReference - Class in org.jbiowh.core.datasets.drug.drugbank.parser.utility
This class split the DrugBank reference and print it on the relational table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
DrugBankSplitReference() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.utility.DrugBankSplitReference
 
DrugBankSynonyms - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankSynonyms entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankSynonyms() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
DrugBankSynonyms(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
DrugBankSynonyms(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
DRUGBANKSYNONYMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTables - Class in org.jbiowh.core.datasets.drug.drugbank.parser
This class is the DrugBank Tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTargets - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTargets entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTargets() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
DrugBankTargets(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
DrugBankTargets(Long, long, int) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
DRUGBANKTARGETS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTargetsActions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTargetsActions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTargetsActions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
DrugBankTargetsActions(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
DrugBankTargetsActions(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
DRUGBANKTARGETSACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTargetsRef - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTargetsRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTargetsRef() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
DrugBankTargetsRef(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
DrugBankTargetsRef(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
DRUGBANKTARGETSREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTaxonomy - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTaxonomy entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTaxonomy() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
DrugBankTaxonomy(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
DrugBankTaxonomy(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
DRUGBANKTAXONOMY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTaxonomySubstructures - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTaxonomySubstructures entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTaxonomySubstructures() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
DrugBankTaxonomySubstructures(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
DrugBankTaxonomySubstructures(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
DRUGBANKTAXONOMYSUBSTRUCTURES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTransfer - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.transfer
This class handled the DrugBank transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
DrugBankTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.transfer.DrugBankTransfer
Create the Drugbank transfer
DrugBankTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.transfer.DrugBankTransfer
Create the Drugbank transfer
DrugBankTransporters - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTransporters entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTransporters() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
DrugBankTransporters(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
DrugBankTransporters(Long, long, int) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
DRUGBANKTRANSPORTERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTransportersActions - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTransportersActions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTransportersActions() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
DrugBankTransportersActions(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
DrugBankTransportersActions(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
DRUGBANKTRANSPORTERSACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DrugBankTransportersRef - Class in org.jbiowh.core.datasets.drug.drugbank.jpa.entities
This class is the DrugBankTransportersRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugBankTransportersRef() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
DrugBankTransportersRef(Long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
DrugBankTransportersRef(Long, long) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
DRUGBANKTRANSPORTERSREF - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
 
DRUGINTERACTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugInteractionsTags
 
DRUGINTERACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugInteractionsTags
 
DrugInteractionsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the DrugInteractions XML tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DrugPathwayGraph - Class in org.jbiowh.tools.examples
This class creates a Drugs-Protein-Pathway-Protein-Drug graph and retrieve the shortest path between the first drug and other drug $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-20 10:29:19 +0100 (Wed, 20 Mar 2013) $ $LastChangedRevision: 515 $
DrugPathwayGraph() - Constructor for class org.jbiowh.tools.examples.DrugPathwayGraph
 
DrugPathwayGraphFrame - Class in org.jbiowh.tools.examples
 
DrugPathwayGraphFrame() - Constructor for class org.jbiowh.tools.examples.DrugPathwayGraphFrame
Creates new form DrugPathwayGraphFrame
Drugs - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is is the XML start point for DrugBank $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Drugs() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drugs
 
DrugTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Drug XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
DRUGTARGET - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 

E

EC - Variable in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
ED - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
edgeAdded(GraphEdgeChangeEvent<V, E>) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
edgeCount() - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Count the graph edges
edgeRemoved(GraphEdgeChangeEvent<V, E>) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
edgeToString(Object, Object, int) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Return a string with the edge object in a format with tab in front
edit(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
edit(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
edit(PfamArchitecture) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
edit(PfamARegFullInsignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
edit(PfamARegFullSignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
edit(PfamBbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
edit(PfamClans) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
edit(PfamCompleteProteomes) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
edit(PfamLiteratureReferences) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
edit(PfamProteomeRegions) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
edit(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
edit(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
edit(GenePTT) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
edit(DataSet) - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Edit a DataSet entity object
edit(WidTable) - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Edit the WidTable entity
edit(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
edit(OntologySynonym) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
edit(KEGGCompound) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
edit(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
edit(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
edit(KEGGGlycan) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
edit(KEGGPathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
edit(KEGGReaction) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
edit(KEGGRPair) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
edit(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
edit(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
edit(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
edit(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
edit(MIFEntrySet) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
edit(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
edit(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
edit(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
edit(UniRefEntry) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
edit(UniRefMember) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
edit(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
edit(ProteinKeyword) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
edit(Taxonomy) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
EditCellTableModel - Class in org.jbiowh.gui.component.table.model
This Class is general editable table model $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
EditCellTableModel(String[], Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.EditCellTableModel
Create a table model for the SQL create table process
EFFECTOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
end() - Method in class org.jbiowh.core.utility.utils.ParseFiles
Close and delete all created files
endElement(String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
This is the endElement method for the Header on GO
endElement(String, String, String) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
endElement(String, int, boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
This is the endElement method for the Header on GO
endElement(String, int, boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
This is the endElement method for the Header on GO
endElement(String, int, boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
This is the endElement method for the Header on GO
endElement(String, String, String) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Availability
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
This is the endElement method
endElement(String, int, String) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVType
This is the endElement method
endElement(String, int, String) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Entry
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.EntrySet
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Feature
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
This is the endElement method
endElement(String, String, String) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.MIF25DefaultHandler
 
endElement(String, int, long, String) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
This is the endElement method
endElement(String, int, String) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Participant
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Source
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Xref
This is the endElement method
endElement(String, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Entry
This is the endElement method for the Header on GO
endElement(String, int, boolean) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
This is the endElement method for the Header on GO
endElement(String, String, String) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefDefaultHandler
 
endElement(String, int) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefXML
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Comment
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Conflict
This is the endElement method for the Header on GO
endElement(String, int, Boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Entry
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Feature
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Gene
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Interactant
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Isoform
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Keyword
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Location
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Organism
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Reference
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
This is the endElement method for the Header on GO
endElement(String, int) - Method in class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
This is the endElement method for the Header on GO
endElement(String, String, String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.UniprotDefaultHandler
 
endElementGOHeader(String, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOHeader
This is the endElement method for the Header on GO
endElementGOTerm(String, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOTerm
This is the endElement method for the Term on GO
EntityParserFieldProxy - Class in org.jbiowh.gui.datasets
This Class is to extract from each Dataset Entity the selected field $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 515 $
EntityParserViewProxy - Class in org.jbiowh.gui.datasets
This Class is to visualize the correct Dataset Entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
EntityParserViewProxy(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.EntityParserViewProxy
 
EntityRelationshipDialog - Class in org.jbiowh.gui.component.graph
This Class show a graph with the JBioWH entities relationship $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
EntityRelationshipDialog(Frame, boolean) - Constructor for class org.jbiowh.gui.component.graph.EntityRelationshipDialog
Creates new form EntityRelationshipDialog
Entry - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Entry XML parser from JAXB for KGML file format
Entry() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
entry - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
ENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
Entry - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class is the Entry parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Entry() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Entry
This constructor initialize the WH file manager and the WH DataSet manager
Entry - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is handled the XML Entry tag on Uniref $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Entry() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.Entry
This constructor initialize the WH file manager and the WH DataSet manager
ENTRY - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
Entry - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Entry tag on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Entry() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Entry
This constructor initialize the WH file manager and the WH DataSet manager
entry1 - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
 
entry2 - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
 
EntrySet - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML EntrySet tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
EntrySet() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.EntrySet
This constructor initialize the WH file manager and the WH DataSet manager
EntrySetTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML EntreSet tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
EntrySetTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntrySetTags
 
EntryTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class is the Entry XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
EntryTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntryTags
 
EntryTags - Class in org.jbiowh.core.datasets.protclust.parser.xml.tags
This Class storage the Uniprot XML Header Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
EntryTags() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
EntryTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the Uniprot XML Header Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
EntryTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
ENZYME - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.EnzymesTags
 
ENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
ENZYMES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.EnzymesTags
 
EnzymesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Enzymes XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
equals(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
equals(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
equals(Object) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
 
equals(Object) - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
equals(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
equals(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
equals(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
equals(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
equals(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
equals(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
equals(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
equals(Object) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
equals(Object) - Method in class org.jbiowh.core.dbms.sql.SQLTable
 
equals(Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
 
equals(Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
 
equals(Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
 
equals(Object) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Compares this WHDBMSFactory to the specified object.
EQUATION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
ERROR - Variable in class org.jbiowh.core.logger.VerbLogger
This is the error message information level
EvidencedStringType - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the EvidencedStringType on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
EvidencedStringType() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
This constructor initialize the WH file manager and the WH DataSet manager
EvidencedStringTypeTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Tags for EvidencedStringType $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
EvidencedStringTypeTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.EvidencedStringTypeTags
 
execute(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
execute(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
This method execute the SQL sentence.
executeMultipleSQLSelect(List<String>) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
executeMultipleSQLSelect(List<String>, int, int) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
executeMultipleSQLSelect(List<String>) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Execute multiples SQL select sentences
executeMultipleSQLSelect(List<String>, int, int) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Execute multiples SQL select sentences with the desired limits
executeSingleSQLSelect(String, int, int) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
executeSingleSQLSelect(String, int, int) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Execute the SQL select sentence with the desired limits
executeUpdate(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Executes the given SQL statement, which may be an INSERT, UPDATE, or DELETE statement or an SQL statement that returns nothing, such as an SQL DDL statement.
executeUpdate(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Executes the given SQL statement, which may be an INSERT, UPDATE, or DELETE statement or an SQL statement that returns nothing, such as an SQL DDL statement.
ExperimentalInteractor - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ExperimentalInteractor Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentalInteractor() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
This constructor initialize the WH file manager and the WH DataSet manager
ExperimentalInteractorList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ExperimentalInteractorList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentalInteractorList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
This constructor initialize the WH file manager and the WH DataSet manager
ExperimentalInteractorListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ExperimentalInteractorList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentalInteractorListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentalInteractorListTags
 
ExperimentalInteractorTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ExperimentalInteractor Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentalInteractorTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentalInteractorTags
 
EXPERIMENTALPROPERTIES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExperimentalPropertiesTags
 
ExperimentalPropertiesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is ExperimentalProperties XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ExperimentDescription - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentDescription() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
This constructor initialize the WH file manager and the WH DataSet manager
ExperimentDescriptionTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class is the ExperimentDescription XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentDescriptionTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
ExperimentList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ExperimentList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
This constructor initialize the WH file manager and the WH DataSet manager
ExperimentListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ExperimentList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentListTags
 
ExperimentRefList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ExperimentRefList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentRefList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
This constructor initialize the WH file manager and the WH DataSet manager
ExperimentRefListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ExperimentRefList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ExperimentRefListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentRefListTags
 
EXPIRES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
ExploreDirectory - Class in org.jbiowh.core.utility.utils
This class is to explore a complete directory $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ExtendedListTableModel - Class in org.jbiowh.gui.component.table.model
This Class is the Table Model based on List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
ExtendedListTableModel(String[], List<List<Object>>, Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.ExtendedListTableModel
Create the ExtendedListTable model for complex tables
ExtendedModelData - Class in org.jbiowh.gui.component.table.model.data
This Class is the ListTableModel2 data $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
ExtendedModelData() - Constructor for class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Create the extended data object
EXTERNALIDENTIFIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalIdentifiersTags
 
EXTERNALIDENTIFIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.IdentifiersTypeTags
 
EXTERNALIDENTIFIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalIdentifiersTags
 
EXTERNALIDENTIFIERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.IdentifiersTypeTags
 
ExternalIdentifiersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the ExternalIdentifiers XML tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
EXTERNALLINK - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalLinksTags
 
EXTERNALLINKS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalLinksTags
 
ExternalLinksTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the ExternalLinks XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
extractFilesPathFromDir(File) - Method in class org.jbiowh.core.utility.utils.ExploreDirectory
This return a linked list of file into the directory
extractFilesPathFromDir(File, String[]) - Method in class org.jbiowh.core.utility.utils.ExploreDirectory
This return a linked list of file into the directory
extractPatternFromField(String, String, String, String, String, String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Format the Entry's field splitting the value by a ArrayList object of extracted pattern

F

Feature - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Feature Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Feature() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Feature
This constructor initialize the WH file manager and the WH DataSet manager
Feature - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Feature tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Feature() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Feature
This constructor initialize the WH file manager and the WH DataSet manager
FeatureList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML FeatureList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
This constructor initialize the WH file manager and the WH DataSet manager
FeatureListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML FeatureList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureListTags
 
FeatureRange - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML FeatureRange Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureRange() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
This constructor initialize the WH file manager and the WH DataSet manager
FeatureRangeList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML FeatureRangeList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureRangeList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
This constructor initialize the WH file manager and the WH DataSet manager
FeatureRangeListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML FeatureRangeList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureRangeListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeListTags
 
FeatureRangeTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML FeatureRange Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureRangeTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
FeatureTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Feature Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
FeatureTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureTags
 
FeatureTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Feature tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
FeatureTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
fgcolor - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
FIELD - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
file - Variable in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
 
FileChooser - Class in org.jbiowh.gui.component.file
This JDialog is the file chooser option $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 396 $
FileChooser(Frame, boolean, FileNameExtensionFilter) - Constructor for class org.jbiowh.gui.component.file.FileChooser
Creates new form FileChooser
FileChooser(Frame, boolean, List<FileNameExtensionFilter>) - Constructor for class org.jbiowh.gui.component.file.FileChooser
Creates new form FileChooser
fillChoice(HashMap<String, Class>) - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
finalize() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Ensures that the dispose method of this MenuScroller is called when there are no more references to it.
FindALLHumProt - Class in org.jbiowh.tools.examples
This class is to use the jbiowh Java API to search all human protein $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 15:24:14 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 459 $
FindALLHumProt() - Constructor for class org.jbiowh.tools.examples.FindALLHumProt
 
findALLHumProt() - Method in class org.jbiowh.tools.examples.FindALLHumProt
This method search all human proteins
FindALLHumProtinGO - Class in org.jbiowh.tools.examples
This class is to use the jbiowh Java API to search all human protein linked to a GO term $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 15:24:14 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 459 $
FindALLHumProtinGO() - Constructor for class org.jbiowh.tools.examples.FindALLHumProtinGO
 
findALLHumProtinGO() - Method in class org.jbiowh.tools.examples.FindALLHumProtinGO
Search all human protein linked to a GO term
FindALLHumProtinGOwithConst - Class in org.jbiowh.tools.examples
This class is to use the jbiowh Java API to search all human protein linked to a GO list
FindALLHumProtinGOwithConst() - Constructor for class org.jbiowh.tools.examples.FindALLHumProtinGOwithConst
 
findALLHumProtinGOwithConst() - Method in class org.jbiowh.tools.examples.FindALLHumProtinGOwithConst
Search all human protein linked to a GO list
findDataSet(Long) - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Find a DataSet from its Id
findDataSetEntities() - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Find all DataSet entities
findDataSetEntities(int, int) - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Find all DataSet entities between the desired limits
findDrugBank(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
findDrugBank() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
UniRef.
Include the Proteins and genes
findDrugBankEntities() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
findDrugBankEntities(int, int) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
findGene() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
GeneInfo
.
FindGenefromDrug - Class in org.jbiowh.tools.examples
This class is to use the jbiowh Java API to search all gene linked to asthma Drugs $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 15:24:14 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 459 $
FindGenefromDrug() - Constructor for class org.jbiowh.tools.examples.FindGenefromDrug
 
findGenefromDrug() - Method in class org.jbiowh.tools.examples.FindGenefromDrug
Search all gene linked to asthma drugs
FindGenefromProteinGi - Class in org.jbiowh.tools.gene
This class is used to find genes in the JBioWH relational schema from the command line from a list of its proteinGi $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 15:24:14 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 459 $
FindGenefromProteinGi() - Constructor for class org.jbiowh.tools.gene.FindGenefromProteinGi
Create the find gene object
findGeneInfo(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
findGeneInfoEntities() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
findGeneInfoEntities(int, int) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
findGenePTT(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
findGenePTT() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
GenePTT
Find the genes which belongs to the Chromosome NC_003062.
Include the KEGG data linked to this chromosome
findGenePTTEntities() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
findGenePTTEntities(int, int) - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
findKEGG() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
KEGGPathway.
findKEGGCompound(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
findKEGGCompoundEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
findKEGGCompoundEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
findKEGGEnzyme(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
findKEGGEnzymeEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
findKEGGEnzymeEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
findKEGGGene(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
findKEGGGeneEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
findKEGGGeneEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
findKEGGGlycan(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
findKEGGGlycanEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
findKEGGGlycanEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
findKEGGPathway(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
findKEGGPathwayEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
findKEGGPathwayEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
findKEGGReaction(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
findKEGGReactionEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
findKEGGReactionEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
findKEGGRPair(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
findKEGGRPairEntities() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
findKEGGRPairEntities(int, int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
findMIF() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
MIF.
findMIFEntryExperiment(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
findMIFEntryExperimentEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
findMIFEntryExperimentEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
findMIFEntryInteraction(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
findMIFEntryInteractionEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
findMIFEntryInteractionEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
findMIFEntryInteractor(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
findMIFEntryInteractorEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
findMIFEntryInteractorEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
findMIFEntrySet(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
findMIFEntrySetEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
findMIFEntrySetEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
findMIFEntrySetEntry(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
findMIFEntrySetEntryEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
findMIFEntrySetEntryEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
findMIFEntrySource(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
findMIFEntrySourceEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
findMIFEntrySourceEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
findMIFInteractionParticipant(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
findMIFInteractionParticipantEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
findMIFInteractionParticipantEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
findMIFOtherBioSourceType(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
findMIFOtherBioSourceTypeEntities() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
findMIFOtherBioSourceTypeEntities(int, int) - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
findNode(String) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Find the node with name name
findNode(String, TreeNode) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Find the node with name name starting from the passed node
findOMIM(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
findOmim() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
OMIM.
Include the Proteins and genes
findOMIMEntities() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
findOMIMEntities(int, int) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
findOntology(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
findOntology() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
Ontology
findOntologyEntities() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
findOntologyEntities(int, int) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
findOntologySynonym(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
findOntologySynonymEntities() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
findOntologySynonymEntities(int, int) - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
findPFam() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
PFam.
Include the proteins linked
findPfamA(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
findPfamAEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
findPfamAEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
findPfamArchitecture(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
findPfamArchitectureEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
findPfamArchitectureEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
findPfamARegFullInsignificant(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
findPfamARegFullInsignificantEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
findPfamARegFullInsignificantEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
findPfamARegFullSignificant(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
findPfamARegFullSignificantEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
findPfamARegFullSignificantEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
findPfamB(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
findPfamBEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
findPfamBEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
findPfamClans(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
findPfamClansEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
findPfamClansEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
findPfamCompleteProteomes(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
findPfamCompleteProteomesEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
findPfamCompleteProteomesEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
findPfamLiteratureReferences(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
findPfamLiteratureReferencesEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
findPfamLiteratureReferencesEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
findPfamProteomeRegions(PfamProteomeRegionsPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
findPfamProteomeRegionsEntities() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
findPfamProteomeRegionsEntities(int, int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
findProtein(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
Find by primary key.
FindProtein - Class in org.jbiowh.tools.protein
This class return the protein's sequences in fasta format $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-20 10:29:19 +0100 (Wed, 20 Mar 2013) $ $LastChangedRevision: 460 $
FindProtein() - Constructor for class org.jbiowh.tools.protein.FindProtein
 
findProtein() - Method in class org.jbiowh.tools.protein.FindProtein
 
findProtein() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
Protein.
Include the gene linked to theses proteins
findProteinEntities() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
findProteinEntities(int, int) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
FindProteinFromTaxonomy - Class in org.jbiowh.tools.protein
This class is print the proteins from the taxonomy $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 15:24:14 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 459 $
FindProteinFromTaxonomy() - Constructor for class org.jbiowh.tools.protein.FindProteinFromTaxonomy
 
findProteinKeyword(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
findProteinKeywordEntities() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
findProteinKeywordEntities(int, int) - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
findProtFasta() - Method in class org.jbiowh.tools.gene.FindGenefromProteinGi
Find proteins from the proteinGi from Gene and printed them in a fasta format and its UniProt Id
findTaxonomy(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
findTaxonomy() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
Taxonomy
findTaxonomyEntities() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
findTaxonomyEntities(int, int) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
FindTaxonomyGraph - Class in org.jbiowh.tools.taxonomy
This class create a taxonomy graph from the Tax Id $Author$ $LastChangedDate$ $LastChangedRevision$
FindTaxonomyGraph() - Constructor for class org.jbiowh.tools.taxonomy.FindTaxonomyGraph
 
findTaxonomyGraph() - Method in class org.jbiowh.tools.taxonomy.FindTaxonomyGraph
Creates and print the Taxonomy graph
findUniRef() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
UniRef.
Include the Proteins
findUniRefEntry(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
findUniRefEntryEntities() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
findUniRefEntryEntities(int, int) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
findUniRefMember(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
findUniRefMemberEntities() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
findUniRefMemberEntities(int, int) - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
findWidTable(Long) - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Find a WidTable from its Id
findWidTableEntities() - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Find all WidTable entities
findWidTableEntities(int, int) - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Find all WidTable entities between the desired limits
FOODINTERACTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.FoodInteractionsTags
 
FOODINTERACTIONS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.FoodInteractionsTags
 
FoodInteractionsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the FoodInteractions XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
FORM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
 
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.gene.KEGGGene
 
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGCompound
Format the Compound entry parsing its fields
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGEnzyme
Format the Enzyme entry parsing its fields
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGGlycan
 
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGReaction
Format the Reaction entry parsing its fields
format() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGRPair
Format the Rpair entry parsing its fields
format() - Method in interface org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFactory
 
formatFieldArrayListSplit(String, String, String, String, String, String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Format the Entry's field splitting the value by regex and extract from the result the petter as a new key * Replace the field value by an ArrayList Object which includes ArrayList elements with 2 elements: The first element is the new key and the second element the rest of the data
formatFieldReplace(String, String, String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Format the Entry's field replace the oldChar value
formatFieldSplit(String, String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Format the Entry's field splitting the value by patter Replace the field value by an ArrayList Object
FORMULA - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
FORMULA - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
FrecPathGeneNeighbors - Class in org.jbiowh.tools.examples
Given a protein, what are the most frequent pathways in its chromosomal neighbors (+/- 3) in bacteria?

The homologs of a protein will be approximated by its UniRef clusters (100%, 90% or 50% identity).
FrecPathGeneNeighbors() - Constructor for class org.jbiowh.tools.examples.FrecPathGeneNeighbors
Creates the object
frecPathGeneNeighbors() - Method in class org.jbiowh.tools.examples.FrecPathGeneNeighbors
Identify the most frequent pathways in its chromosomal neighbors (+/- 3) in bacteria

G

GENCODEFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
GENCODETEMP - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
Gene - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the Gene on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Gene
This constructor initialize the WH file manager and the WH DataSet manager
Gene2Accession - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2Accession entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 322 $
Gene2Accession() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
Gene2Accession(Gene2AccessionPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
Gene2Accession(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
GENE2ACCESSION - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2ACCESSION_HAS_PROTEIN - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2ACCESSIONFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2AccessionParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2Accession parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2AccessionParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2AccessionParser
 
gene2AccessionPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
Gene2AccessionPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2Accession PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2AccessionPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
Gene2AccessionPK(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
GENE2ACCESSIONTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2Ensembl - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2Ensembl entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2Ensembl() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
Gene2Ensembl(Long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
Gene2Ensembl(Long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
GENE2ENSEMBL - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2ENSEMBLFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2EnsemblParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2Ensembl Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2EnsemblParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2EnsemblParser
 
GENE2ENSEMBLTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2GO - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2GOFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2GOParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2GO Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2GOParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2GOParser
 
GENE2GOTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2MIMParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2MIM Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2MIMParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2MIMParser
 
Gene2PMID - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is Gene2PMID entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2PMID() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
Gene2PMID(Gene2PMIDPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
Gene2PMID(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
GENE2PMID - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2PMIDFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2PMIDParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2PMID Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2PMIDParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2PMIDParser
 
gene2PMIDPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
Gene2PMIDPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2PMIDPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2PMIDPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
Gene2PMIDPK(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
GENE2PUBMEDTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2STS - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is Gene2STS entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2STS() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
Gene2STS(Gene2STSPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
Gene2STS(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
GENE2STS - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2STSFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2STSParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2STS Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2STSParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2STSParser
 
gene2STSPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
Gene2STSPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2STSPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2STSPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
Gene2STSPK(long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
GENE2STSTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2UniGene - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2UniGene entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2UniGene() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
Gene2UniGene(Gene2UniGenePK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
Gene2UniGene(long, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
GENE2UNIGENE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE2UNIGENEFILE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
Gene2UniGeneParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the Gene2UniGene Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Gene2UniGeneParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.Gene2UniGeneParser
 
gene2UniGenePK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
Gene2UniGenePK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the Gene2UniGenePK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Gene2UniGenePK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
Gene2UniGenePK(long, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
GENE2UNIGENETEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE_GROUP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE_HISTORY - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE_INFO - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENE_ONTOLOGY - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
GENE_REFSEQ_UNIPROTKB_COLLAB - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneDataSetView - Class in org.jbiowh.gui.datasets.gene
This Class handled the Gene View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.gene.GeneDataSetView
Creates new form AbstractDataSetView
GeneGenePTTLink - Class in org.jbiowh.core.datasets.gene.parser.links
This Class populates the GENEINFO_HAS_GENEPTT relationship table $Author$ $LastChangedDate$ $LastChangedRevision$
GeneGroup - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneGroup entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneGroup() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
GeneGroup(GeneGroupPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
GeneGroup(long, String, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
GENEGROUP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneGroupParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the GeneGroup Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneGroupParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.GeneGroupParser
 
geneGroupPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
GeneGroupPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneGroupPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneGroupPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
GeneGroupPK(long, String, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
GENEHISTORY - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneHistoryParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the GeneHistory Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneHistoryParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.GeneHistoryParser
 
GENEID - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
GeneInfo - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneInfo entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneInfo() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
GeneInfo(Long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
GeneInfo(Long, long, long, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
GENEINFO - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENEINFO_HAS_GENEPTT - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENEINFO_HAS_KEGGGENE - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENEINFO_HAS_OMIM - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENEINFO_HAS_ONTOLOGY - Static variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneInfoDBXrefs - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneInfoDBXrefs entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneInfoDBXrefs() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
GeneInfoDBXrefs(GeneInfoDBXrefsPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
GeneInfoDBXrefs(long, String, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
GENEINFODBXREFS - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
geneInfoDBXrefsPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
GeneInfoDBXrefsPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneInfoDBXrefsPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneInfoDBXrefsPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
GeneInfoDBXrefsPK(long, String, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
GeneInfoJpaController - Class in org.jbiowh.core.datasets.gene.jpa.controller
This class is the GeneInfo Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneInfoJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
GeneInfoListView - Class in org.jbiowh.gui.datasets.gene
This Class show the GeneInfo List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-02-07 09:07:45 +0100 (Thu, 07 Feb 2013) $ $LastChangedRevision: 385 $
GeneInfoListView(Collection<GeneInfo>, JComponent) - Constructor for class org.jbiowh.gui.datasets.gene.GeneInfoListView
Create the GeneInfo List object
GeneInfoParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is the GeneInfo parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneInfoParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.GeneInfoParser
 
GeneInfoSynonyms - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneInfoSynonyms entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneInfoSynonyms() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
GeneInfoSynonyms(GeneInfoSynonymsPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
GeneInfoSynonyms(long, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
GENEINFOSYNONYMS - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
geneInfoSynonymsPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
GeneInfoSynonymsPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneInfoSynonymsPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneInfoSynonymsPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
GeneInfoSynonymsPK(long, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
GENEINFOWIDDBXREFSTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GENEINFOWIDSYNONYMSTEMP - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneKEGGGeneLink - Class in org.jbiowh.core.datasets.gene.parser.links
This Class is the Gene KEGGGene link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneLinks - Class in org.jbiowh.core.datasets.gene.parser.links
This Class create all Gene external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneLocation - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML GeneLocation tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneLocation() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
This constructor initialize the WH file manager and the WH DataSet manager
GeneLocationTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class staorage the XML GeneLocation on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GeneLocationTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
GENELOCUSTAG - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
GENEMAPFILE - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
GeneMapParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the parser for the OMIM genemap file $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneMapParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.GeneMapParser
 
GeneOMIMLink - Class in org.jbiowh.core.datasets.gene.parser.links
This Class is the Gene OMIM link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneOntologyLink - Class in org.jbiowh.core.datasets.gene.parser.links
This Class is the Gene Ontology link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneParser - Class in org.jbiowh.core.datasets.gene.parser
This Class is the Gene Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.GeneParser
 
GenePTT - Class in org.jbiowh.core.datasets.gene.jpa.entities.geneptt
This Class is the GenePTT entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GenePTT() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
GenePTT(Long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
GenePTT(Long, long, long, String, String, int, String, String, String, String, String, String, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
GENEPTT - Static variable in class org.jbiowh.core.datasets.gene.parser.GenePTTTables
 
GENEPTT_HAS_TAXONOMY - Static variable in class org.jbiowh.core.datasets.gene.parser.GenePTTTables
 
GenePTTComparator - Class in org.jbiowh.core.datasets.gene.utils
This class is used as Comparator for Set $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GenePTTComparator() - Constructor for class org.jbiowh.core.datasets.gene.utils.GenePTTComparator
 
GenePTTDataSetView - Class in org.jbiowh.gui.datasets.gene
This Class handled the Chromosome View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 396 $
GenePTTDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.gene.GenePTTDataSetView
Creates new form AbstractDataSetView
GenePTTJpaController - Class in org.jbiowh.core.datasets.gene.jpa.controller
This class is the GenePTT Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GenePTTJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
GenePTTLinks - Class in org.jbiowh.core.datasets.gene.parser.links
This Class create all GenePTT external relationship tables $Author$ $LastChangedDate$ $LastChangedRevision$
GenePTTListView - Class in org.jbiowh.gui.datasets.gene
This Class show the GenePTT List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GenePTTListView(Collection<GenePTT>, JComponent) - Constructor for class org.jbiowh.gui.datasets.gene.GenePTTListView
Create the GenePTT List object
GenePTTParser - Class in org.jbiowh.core.datasets.gene.parser
This Class is the Gene PTT parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-02-07 09:07:45 +0100 (Thu, 07 Feb 2013) $ $LastChangedRevision: 396 $
GenePTTParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.GenePTTParser
 
GenePTTTables - Class in org.jbiowh.core.datasets.gene.parser
This Class is the GenePTT Table list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GENEPTTTAXONOMY - Variable in class org.jbiowh.core.datasets.gene.parser.GenePTTTables
 
GenePTTTaxonomyLink - Class in org.jbiowh.core.datasets.gene.parser.links
This Class is populates the GENEPTT_HAS_TAXONOMY relationship table $Author$ $LastChangedDate$ $LastChangedRevision$
GenePTTTransfer - Class in org.jbiowh.core.datasets.gene.jpa.transfer
This class handled the GenePTT transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GenePTTTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.transfer.GenePTTTransfer
Create the GenePTT transfer
GenePTTTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.transfer.GenePTTTransfer
Create the GenePTT transfer
GENERALREFERENCES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
GeneRefSeqUniprot - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneRefSeqUniprot entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneRefSeqUniprot() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
GeneRefSeqUniprot(GeneRefSeqUniprotPK) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
GeneRefSeqUniprot(GeneRefSeqUniprotPK, long) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
GeneRefSeqUniprot(String, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
GENEREFSEQUNIPROT - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
GeneRefseqUniProtParser - Class in org.jbiowh.core.datasets.gene.parser.files
This Class is GeneRefseqUniProt Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneRefseqUniProtParser() - Constructor for class org.jbiowh.core.datasets.gene.parser.files.GeneRefseqUniProtParser
 
geneRefSeqUniprotPK - Variable in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
GeneRefSeqUniprotPK - Class in org.jbiowh.core.datasets.gene.jpa.entities.gene
This Class is the GeneRefSeqUniprotPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneRefSeqUniprotPK() - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
GeneRefSeqUniprotPK(String, String) - Constructor for class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
GENERIC - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ManufacturersTags
 
genericType(Class, String) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Return a map with the external relationship fields and its class for a JBioWH entity
GENES - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
GenesDrugsFromTaxonomyFamily - Class in org.jbiowh.tools.gene
This class identify genes encoding for drug target proteins and creating the drug list from a Taxonomy TaxId $Author$ $LastChangedDate$ $LastChangedRevision$
GenesDrugsFromTaxonomyFamily() - Constructor for class org.jbiowh.tools.gene.GenesDrugsFromTaxonomyFamily
 
genesDrugsFromTaxonomyFamily() - Method in class org.jbiowh.tools.gene.GenesDrugsFromTaxonomyFamily
Find genes in a same chromosome distant from a number of pair bases that encoding drugs target proteins
GENESYMBOL - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
GeneTables - Class in org.jbiowh.core.datasets.gene.parser
This Class is the Gene Table list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
GeneTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML tags for gene on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GeneTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneTags
 
GeneTransfer - Class in org.jbiowh.core.datasets.gene.jpa.transfer
This class handled the GeneInfo transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GeneTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.transfer.GeneTransfer
Create the GeneInfo transfer
GeneTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.gene.jpa.transfer.GeneTransfer
Create the GeneInfo transfer
getAbbreviation() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getAbsorption() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getAbstract1() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
getAcc() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
getACC() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the ACC Tags
getACCESSION() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getAccessionNumber() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
getAccessionNumber() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
getAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
getAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
getAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
getAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
getAffectedOrganisms() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
getAHFSCodes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
getAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getALIASFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getAliEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getAliEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getAliStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getAliStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getALLERGENNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getAllSQL() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get all SQL sentences
getAlt() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Gets the value of the alt property.
getAlt() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Gets the value of the alt property.
getALTERNATIVENAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getAltId() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
getALTID() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the ALTID Tags
getApplication() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the the DataSet's application name
getApplicationVersion() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's application version
getApproved() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getArchitecture() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getArchitectureAcc() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getAssembly() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getATCCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
getAttribType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
getAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getATTRIBUTEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AttributeListTags
 
getATTRIBUTELISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AttributeListTags
 
getAttribValue() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
getAuthor() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getAuthor() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getAuthor() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
getAutoPfamseq() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
getAv() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
getAvailability() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
getAVAILABILITYFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AvailabilityTags
 
getAVAILABILITYLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AvailabilityListTags
 
getAvailabilityRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getAVAILABILITYREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getAverageCoverage() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getAverageLength() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getBase() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getBASEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getBasicData() - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the basic data to show
getBasicData() - Method in class org.jbiowh.gui.datasets.disease.OMIMDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.drug.DrugBankDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.gene.GeneDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.gene.GenePTTDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.ontology.OntologyDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.protein.ProteinDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.protfam.ProtFamDataSetView
 
getBasicData() - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyDataSetView
 
getBEGINFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getBEGINFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getBeginIntervalBegin() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getBeginIntervalEnd() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getBEGININTERVALFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getBeginPos() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getBeginPosition() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getBeginStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getbGColor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getBGColor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getBgcolor() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the bgcolor property.
getBIBREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.BibrefTags
 
getBIOLOGICALROLEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getBIOTECHNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getBiotransformation() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getBondEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
getBondStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
getBottomFixedCount() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Returns the number of items fixed at the bottom of the menu or popup menu.
getBrand() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
getBuildMethod() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getcASNumber() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getCASNumber() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getCategory() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
getCd() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
getCDANTIGENNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getCellToEdgeMap() - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
getCellToVertexMap() - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
getCELLTYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.BioSourceTypeTags
 
getChain() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getChain() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getChain() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
getChangeDate() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's change date
getChangeStatus() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getChecksum() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getChecksum() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getCHECKSUMFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getChromosome() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getCigar() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getCigar() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getCigar() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
getCite() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
getCite() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
getCite() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
getCite() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
getCite() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
getCitId() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
getCitKey() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
getClanAcc() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getClanAuthor() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getClanComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getClanDescription() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getClanId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getClass1() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
getClass1() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
getClass1() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
getClearance() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getCn() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
getCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
getCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getCog() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getCollection() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Get the collection
getCollectionColumns(T) - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Return the field to be visualized from the collection
getCollectionColumns(OMIM) - Method in class org.jbiowh.gui.datasets.disease.OMIMListView
 
getCollectionColumns(PfamAbioWH) - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamListView
 
getCollectionColumns(DrugBank) - Method in class org.jbiowh.gui.datasets.drug.DrugBankListView
 
getCollectionColumns(GeneInfo) - Method in class org.jbiowh.gui.datasets.gene.GeneInfoListView
 
getCollectionColumns(GenePTT) - Method in class org.jbiowh.gui.datasets.gene.GenePTTListView
 
getCollectionColumns(Ontology) - Method in class org.jbiowh.gui.datasets.ontology.OntologyListView
 
getCollectionColumns(KEGGCompound) - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundListView
 
getCollectionColumns(KEGGEnzyme) - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeListView
 
getCollectionColumns(KEGGGene) - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneListView
 
getCollectionColumns(KEGGGlycan) - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanListView
 
getCollectionColumns(KEGGPathway) - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayListView
 
getCollectionColumns(KEGGReaction) - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionListView
 
getCollectionColumns(Protein) - Method in class org.jbiowh.gui.datasets.protein.ProteinListView
 
getCollectionColumns(UniRefEntry) - Method in class org.jbiowh.gui.datasets.protfam.UniRefEntryListView
 
getCollectionColumns(Taxonomy) - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Get the collection element from the table row
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.disease.OMIMListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.drug.DrugBankListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.gene.GeneInfoListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.gene.GenePTTListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.ontology.OntologyListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.protein.ProteinListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.protfam.UniRefEntryListView
 
getCollectionElementFromTableRow(int) - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyListView
 
getColumn(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the column from its key in the handler
getColumn(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the column from its number in the handler
getColumnClass(int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
 
getColumnCount() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the number of columns in the table
getColumnCount() - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
 
getColumnKey(SQLTableColumn) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the columns key in the handler.
getColumnKey(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the columns key in the handler.
getColumnName(int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
 
getColumns() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Return the table's columns
getColumns() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index's columns
getColumns() - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Return the column's handler
getColumnSet() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return a list of the columns sorted by its internal number
getComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
getComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getComment() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
getComment() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getCOMMENT() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the COMMENT Tags
getComment() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getComment() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getComment() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getComment() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getComment() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
getCOMMENTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getComments() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getCOMMENTTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getCOMPARTMENTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.BioSourceTypeTags
 
getCompeted() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getComponent() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the component property.
getComponent() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getCOMPONENTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getComposition() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getCONFIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceTags
 
getCONFIDENCELISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceListTags
 
getCONFLICTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getConn() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return the MySQL connection
getConn() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the MySQL connection
getCONSIDER() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the CONSIDER Tags
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getConstrainFieldOnEntity() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the constrain field definition on the entity
getConstrainObject(int) - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
 
getConstrains() - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
Get the constrains
getConstrains() - Method in class org.jbiowh.gui.component.panel.ConstrainPanel
 
getConstrains() - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
getContents() - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
Return the SQLTable object
getContents() - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
Get the extended data
getContents() - Method in class org.jbiowh.gui.component.table.model.ListTableModel
Return the data object
getContentsData(int) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
Get the ExtendedModelData data in the column in a List form
getController() - Method in class org.jbiowh.core.datasets.taxonomy.utils.TaxonomyGraph
 
getController(Class) - Method in class org.jbiowh.core.utility.controller.AbstractController
Get the JPA controller and check is it is created or not
getCoord() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getCoords() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the coords property.
getCost() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
getCountry() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getCreated() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getCreated() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getCreated() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getCreated() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getCREATED() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getCs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
getCurrency() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getCurrent() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Get the current gene on the chromosome list
getCurrentSQLLine() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get the current SQL line
getCytogLoc() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getCytogLog() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getData() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
getData() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getData() - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
getData() - Method in class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Get the data list
getDataAt(int) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
getDataAt(int, int) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
Get the data at selected position
getDataSet() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getDataSet() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDataSet() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDataSet() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getDataSet() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getDataset() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the DataSet object loaded
getDataSet() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getDataSet() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getDataSet() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getDataSet() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getDataSet() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDATASET() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getDataSet() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getDataSetCount() - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
Count all DataSet entities objects
getDataSetIn() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDataSetObject() - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the DataSet Object View
getDataSetReport() - Method in class org.jbiowh.tools.dataset.DataSetReport
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getDataSetWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getDate() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getDay() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getDb() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
getDb() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
getDb() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
getDb() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
getDb() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getDb() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getDb() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getDb() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getDb() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getdBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getDBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getdBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getDBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getdBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getDBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getdBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getDBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getdBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getDBAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getDBACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getDBFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getDbId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getDbId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getDbLink() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getDbLink() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getDBMSDataTypes() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return a list of all the data types supported by this database
getDBMSDataTypes() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return a list of all the data types supported by this database
getDBMSIndexTypes() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return a array of all the index types supported by this database
getDBMSIndexTypes() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return a array of all the index types supported by this database
getDBName() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
getDBName() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
getDBNAME() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the DBNAME Tags
getDBREFERENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getDBREFERENCETYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getDBXREF() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the DBXREF Tags
getDef() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getDEF() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the DEF Tags
getDef() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Return the column's default value
getDefinition() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getDefinition() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getDEFSTR() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the DEFSTR Tags
getDepositedBy() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDepositedBy() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getDescription() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDescription() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDescription() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
getDescription() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getDescription() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getDescription() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getDESCRIPTIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getDirectory() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the data source directory
getDisease() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getDisorder() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getDisplayed() - Method in class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Get the displayed list
getDivision() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getDomain() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getDomainBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getDomainBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getDomainBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getDomainEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getDomainEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getDomainEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getDOMAINFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getDomainGA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDomainNC() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDomainOder() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getDomainOrder() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getDomainScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getDomainTC() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getDriver() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return the MySQL JAVA driver
getDriver() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the MySQL JAVA driver
getDrug() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
getDrug() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drugs
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
getDrugBank() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getDrugBank() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDrugBankAffectedOrganisms() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankAHFSCodes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankAsCarriers() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDrugBankAsEnzyme() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDrugBankAsTransporters() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getDrugBankATCCodes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankBrands() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankCalculatedProperties() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankCarriers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankCarriers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
getDrugBankCarriers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
getDrugBankCarriersActions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getDrugBankCarriersRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getDrugBankCarriersWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
getDrugBankCarriersWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
getDrugBankCategories() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankCount() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
getDrugBankDosages() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankDrugInteractions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankDrugInteractionsPK() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
getDrugBankEnzymes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankEnzymes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
getDrugBankEnzymes() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
getDrugBankEnzymesActions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getDrugBankEnzymesRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getDrugBankEnzymesWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
getDrugBankEnzymesWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
getDrugBankExperimentalProperties() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankExternalIdentifiers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankExternalLinks() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankFoodInteractions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankGeneralRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankGroup() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankLink(boolean, Collection<DrugBank>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the DrugBank action
getDrugBankManufacturers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankMixtures() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankPackagers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankPatents() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankPrices() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankProteinSequences() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBanks() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getDrugBankSecondAccessionNumbers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankSynonyms() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankTargets() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankTargets() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
getDrugBankTargets() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
getDrugBankTargetsActions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getDrugBankTargetsRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getDrugBankTargetsWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
getDrugBankTargetsWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
getDrugBankTaxonomy() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankTaxonomySubstructures() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankTransporters() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getDrugBankTransporters() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
getDrugBankTransporters() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
getDrugBankTransportersActions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getDrugBankTransportersRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getDrugBankTransportersWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
getDrugBankTransportersWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
getDrugBankWID() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getDsspCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getEd() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
getEdgeToCellMap() - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
getEdit() - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Return the default edit array for each column
getEditCell() - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Return the edit matrix for all the cells
getEditorComponent() - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
getElement() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
geteMBLCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getENDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getENDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getEndFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getEndIntervalBegin() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getEndIntervalEnd() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getENDINTERVALFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getEndPos() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getEndPosition() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getEndPositionOnTheGenomicAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getEndShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getEndStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getENDSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getEngine() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Return the table's engine
getEnsemblGeneIdentifier() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getEnsemblProteinIdentifier() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getEnsemblRNAIdentifier() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getEntities() - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Return the list of entities to be inserted on the JBioWH copy process
getEntityManager() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.controller.DrugBankJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.mainloader.controller.DataSetJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Get the EntityManagerFactory
getEntityManager() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
getEntityManager() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
getEntityManager() - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method return the Persistence EntityManager
getEntries() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the entry property.
getENTRY() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getEntry() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Uniprot
 
getEntry1() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Gets the value of the entry1 property.
getEntry2() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Gets the value of the entry2 property.
getENTRYFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntryTags
 
getEntrySet() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.MIF25
 
getENTRYSETFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntrySetTags
 
getEquation() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getError() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getERRORFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getEVENTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getEventType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getEvidence() - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
getEVIDENCE() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EvidencedStringTypeTags
 
getEVIDENCE() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneTags
 
getEVIDENCEDSTRINGTYPE() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EvidencedStringTypeTags
 
getEVIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getEVIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getEVIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getEVIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getEVIDENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.KeywordTags
 
getExistence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getEXPERIMENTALINTERACTORFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentalInteractorTags
 
getEXPERIMENTALINTERACTORLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentalInteractorListTags
 
getEXPERIMENTALPREPARATIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getEXPERIMENTALPREPARATIONLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getEXPERIMENTALROLEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getEXPERIMENTALROLELISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getEXPERIMENTDESCRIPTIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
getEXPERIMENTLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentListTags
 
getExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
getExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getEXPERIMENTREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentListTags
 
getEXPERIMENTREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentRefListTags
 
getEXPERIMENTREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getEXPERIMENTREFLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentRefListTags
 
getExperiments() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getEXPERIMENTSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getExpires() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getExponent() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getEXPONENTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getExtOperation() - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
Get the operation between constrains
getFactor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getFACTORFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getFasta(Object) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinToFasta
Verify if the object is a Protein entity and return the Fasta format for this protein
getFastaFormat() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getFastaFromCollection(Collection) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinToFasta
Get a list with all fields to be printed from a Dataset collection
getFEATUREDETECTIONMETHODFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
getFEATUREDETECTIONMETHODFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureTags
 
getFEATUREFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureTags
 
getFEATUREFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getFEATURELISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureListTags
 
getFEATURERANGEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getFEATURERANGELISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeListTags
 
getFEATURETYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureTags
 
getfGColor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getFGColor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getFgcolor() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the fgcolor property.
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getFieldAfterWhere() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getFieldAfterWhere() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the SQL syntax to put after WHERE
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getFieldBeforeWhere() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the SQL syntax to put before WHERE
getFieldId() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getFieldId() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the field that will be used as Id on queries
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getFieldOnEntity() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getFieldOnEntity() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the field definition on the entity
getFields() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Return a Set Object with the field tags used by the Entry
getFields() - Method in interface org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFactory
 
getFields() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the available search fields
getFieldsSet() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the available search fields
getFieldValue() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Return the field HashMap where the Entry data is storage
getFieldValue() - Method in interface org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFactory
 
getFileAbsolutName(String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Get the file name with full path from a File name.
getFileExtensions(Object) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the available file extension to each kind of Dataset
getFirst() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the first gene on the chromosome
getFoodInteractions() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
getForm() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getFormula() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getForwardLambda() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getForwardTau() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getFragment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getFragment() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getFRAGMENTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getFullConsensus() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getFullName() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
Get the fullName value
getFULLNAMEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getFULLNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getFullNameFromNomenclatureAuthority() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGencode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getGenCodeId() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getGene2Accession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGene2AccessionPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getGene2Ensembl() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGene2PMID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGene2PMIDPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
getGene2STS() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGene2STSPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
getGene2UniGene() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGene2UniGenePK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
getGENEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneTags
 
getGeneGroup() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGeneGroupPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
getGeneId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getGeneID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getGeneInfo() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getGeneInfoCount() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GeneInfoJpaController
 
getGeneInfoDBXrefs() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGeneInfoDBXrefsPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
getGeneInfos() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getGeneInfos() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getGeneInfoSynonyms() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGeneInfoSynonymsPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
getGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
getGeneLink(boolean, Object) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the Gene action
getGENELOCATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
getGENELOCATIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
getGeneLocusTag() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getGenePosition() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the gene position in the Chromosome
getGenePTT() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getGenePTT() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getGenePTTCount() - Method in class org.jbiowh.core.datasets.gene.jpa.controller.GenePTTJpaController
 
getGenePTTs() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the list of genes on the chromosome
getGeneRefSeqUniprotPK() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
getGeneric() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
getGeneStatus() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getGeneSymbol() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getGenomicNucleotideAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getGenomicNucleotideAccessionVersion() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getGenomicNucleotideGi() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getGraph() - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Get the T tree in a graph object
getGraph() - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Return the graph generated for the entities classes
getGraphDijkstraShortestPath(Object, Object) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
 
getGraphics() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the graphics property.
getGrouping() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getGroupName() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
getHalfLife() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getHeader() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
getHeader() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GO
 
getHEADER() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOHeaderTags
Get the HEADER tag
getHeight() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getHeight() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the height property.
getHexColour() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getHomeURL() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the the DataSet's Home URL
getHOSTORGANISMFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.HostOrganismListTags
 
getHOSTORGANISMLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.HostOrganismListTags
 
getIcon(String) - Method in class org.jbiowh.gui.component.icons.IconFetch
Return the ImageIcon from its file name
getId() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getId() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
getId() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getId() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
getID() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOCommonTags
Get the ID tag
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Component
Gets the value of the id property.
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the id property.
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Gets the value of the id property.
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Gets the value of the id property.
getId() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Gets the value of the id property.
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getId() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getId() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
getId() - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
 
getId() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
getId(Object) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the identifier for each DataSet entity
getId1() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getId2() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getIdentifier() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AvailabilityTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.InteractantTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.KeywordTags
 
getImage() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getImage() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the image property.
getImexId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getIMEXIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getIndex(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the index from its key in the handler
getIndex(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the index from its number in the handler
getIndexColumn(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index column by its name
getIndexColumn(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index column by its number
getIndexColumnCount() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the number of columns included in the index
getIndexColumnKey(SQLTableIndexColumn) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the map's key for the column
getIndexColumnKey(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the map's key for the column
getIndexColumnKey(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the map's key for the column
getIndexCount() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the number of indexes in the table
getIndexes() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Return the table's indexes
getIndexes() - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Return the index's handler
getIndexes() - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
Return the SQL index handler
getIndexKey(SQLTableIndex) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the index key in the handler.
getIndexKey(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the index key in the handler.
getIndexKey(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the index key in the handler.
getIndexName() - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Get the active index's name showed on the Index Column table
getIndexSet() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return a list of the index sorted by its internal number
getIndication() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getINFERREDINTERACTIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionTags
 
getINFERREDINTERACTIONLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionListTags
 
getInFull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getInFull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getIngredients() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
getInheritedDivision() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getInheritedGencode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getInheritedMCGencode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getInitialLevel() - Method in class org.jbiowh.core.logger.VerbLogger
Return the initial information level to print the messages
getINNNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getInstance() - Static method in class org.jbiowh.core.datasets.disease.omim.parser.links.OMIMLinks
Return a OMIMLinks
getInstance() - Static method in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
Get the OMIM tables instance
getInstance() - Static method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamLinks
Return a PFamLinks instance
getInstance() - Static method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamOntologyLink
Return a PFamOntologyLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamProteinLink
Return a PFamProteinLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamTaxonomyLink
Return a PFamTaxonomyLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
Return a PFamTables instance
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
Return the DrugBank tables instance
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.links.DrugBankProteinLink
Return a DrugBankProteinLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AffectedOrganismsTags
Return a AffectedOrganismsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.AHFSCodesTags
Return a AHFSCodesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ATCCodesTags
Return a ATCCodesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
Return a BondTypeTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BrandsTags
Return a BrandsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CalculatedPropertiesTags
Return a CalculatedPropertiesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CarriersTags
Return a CarriersTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.CategoriesTags
Return a CategoriesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
Return a DosagesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugInteractionsTags
Return a DrugInteractionsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
Return a DrugTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.EnzymesTags
Return a EnzymesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExperimentalPropertiesTags
Return a ExperimentalPropertiesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalIdentifiersTags
Return a ExternalIdentifiersTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalLinksTags
Return a ExternalLinksTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.FoodInteractionsTags
Return a FoodInteractionsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.GroupsTags
Return a GroupsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.IdentifiersTypeTags
Return a IdentifiersTypeTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ManufacturersTags
Return a ManufacturersTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.MixturesTags
Return a MixturesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PackagersTags
Return a PackagersTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
Return a PatentsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PFamsTags
Return a PFamsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
Return a PricesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PropertyTypeTags
Return a PropertyTypeTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ProteinSequencesTags
Return a ProteinSequencesTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SecondaryAccessionNumbersTags
Return a SecondaryAccessionNumbersTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SynonymsTags
Return a SynonymsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TargetBondTypeTags
Return a TargetBondTypeTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TargetsTags
Return a TargetsTags
getInstance() - Static method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TransportersTags
Return a TransportersTags
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.GenePTTTables
Return a GenePTTTables
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.GeneTables
Return a GeneTables
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GeneGenePTTLink
Return a GeneGenePTTLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GeneKEGGGeneLink
Return a GeneKEGGGeneLink
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GeneLinks
Return a GeneLinks
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GeneOMIMLink
Return a GeneOMIMLink
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GeneOntologyLink
Return a GeneOntologyLink
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GenePTTLinks
Return a GenePTTLinks instance
getInstance() - Static method in class org.jbiowh.core.datasets.gene.parser.links.GenePTTTaxonomyLink
Return a GenePTTTaxonomyLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the DataSetFactory object
getInstance() - Static method in class org.jbiowh.core.datasets.mainloader.DataSetsTables
 
getInstance() - Static method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Return a WIDFactory
getInstance() - Static method in class org.jbiowh.core.datasets.ontology.parser.links.OntologyLinks
Return a OntologyLinks
getInstance() - Static method in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
Return a OntologyTables
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
Return a
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.PathwayPrintOnTSVFile
Return a PathwayPrintOnTSVFile
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGCompoundDrugBankLink
Return a KEGGCompoundDrugBankLink
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGLinks
Return a KEGGLinks
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayGeneInfoLink
Return a KEGGPathwayGeneInfoLink
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayProteinLink
Return a KEGGPathwayProteinLink
getInstance() - Static method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayTaxonomyLink
Return a KEGGPathwayTaxonomyLink
getInstance() - Static method in class org.jbiowh.core.datasets.ppi.parser.links.MIF25Links
Return a MIF25Links
getInstance() - Static method in class org.jbiowh.core.datasets.ppi.parser.links.MIF25ProteinLink
Return a MIF25ProteinLink
getInstance() - Static method in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
Return a MIF25Tables
getInstance() - Static method in class org.jbiowh.core.datasets.protclust.parser.links.UniRefLinks
Return a UniRefLinks
getInstance() - Static method in class org.jbiowh.core.datasets.protclust.parser.links.UniRefProteinLink
Return a UniRefProteinLink
getInstance() - Static method in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
Return a UniRefTables
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.links.ProteinGeneLink
Return a ProteinGeneLink
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.links.ProteinGenePTTLink
Return a ProteinGenePTTLink instance
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.links.ProteinKEGGEnzymeLink
Return a ProteinKEGGEnzymeLink
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.links.ProteinOntologyLink
Return a ProteinOntologyLink
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.links.ProteinTaxonomyLink
Return a ProteinTaxonomyLink
getInstance() - Static method in class org.jbiowh.core.datasets.protein.parser.ProteinTables
Return a ProteinTables
getInstance() - Static method in class org.jbiowh.core.datasets.protein.utils.ProteinUtils
Return a ProteinUtils instance
getInstance() - Static method in class org.jbiowh.core.datasets.taxonomy.parser.links.TaxonomyLinks
Return a
getInstance() - Static method in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
Return a TaxonomyTables
getInstance() - Static method in class org.jbiowh.core.dbms.transfer.TransferData
Return a TransferData instance
getInstance() - Static method in class org.jbiowh.core.dbms.WHDBMS
Return a WHDBMS
getInstance() - Static method in class org.jbiowh.core.logger.VerbLogger
Return a VerbLogger
getInstance() - Static method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Return a JpaEntitiesSelected instance
getInstance() - Static method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Return a JpaRelationship instance
getInstance() - Static method in class org.jbiowh.core.utility.utils.BioWHPattern
Return a BioWHPattern
getInstance() - Static method in class org.jbiowh.core.utility.utils.BioWHTime
Return a BioWHTime
getInstance() - Static method in class org.jbiowh.core.utility.utils.ExploreDirectory
Return a ExploreDirectory
getInstance() - Static method in class org.jbiowh.core.utility.utils.ParseFiles
Return a ParseFiles
getInstance() - Static method in class org.jbiowh.core.utility.utils.ReadLinesToList
Return a ReadLinesToList instance
getInstance() - Static method in class org.jbiowh.core.utility.utils.SavedResults
Return a SavedResults
getInstance() - Static method in class org.jbiowh.gui.component.icons.IconFetch
Return a IconFetch instance
getInstance() - Static method in class org.jbiowh.gui.component.panel.result.ResultPanelFactory
Return a ResultPanelFactory
getInstance() - Static method in class org.jbiowh.gui.component.panel.sql.syntax.SQLFunctionsAndOperators
Return a SQLFunctionsAndOperators
getInstance() - Static method in class org.jbiowh.gui.component.panel.sql.syntax.SQLReservedWords
Return a SQLReservedWords
getInstance() - Static method in class org.jbiowh.gui.component.panel.sql.syntax.SQLSpecialChar
Return a SQLSpecialChar
getInstance() - Static method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Return a EntityParserFieldProxy
getInstance() - Static method in class org.jbiowh.gui.datasets.ListViewProxy
Return a ListViewProxy
getIntactID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
getINTACTIDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.InteractantTags
 
getINTERACTANTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.InteractantTags
 
getINTERACTIONDETECTIONMETHODFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
getINTERACTIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getINTERACTIONLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionListTags
 
getInteractionRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getINTERACTIONREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getINTERACTIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getINTERACTORFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
getINTERACTORLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorListTags
 
getInteractorRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getInteractorRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getINTERACTORREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentalInteractorTags
 
getINTERACTORREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getINTERACTORTYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
getInterproId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
getInterval() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Returns the scroll interval in milliseconds
getIntraMolecular() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getINTRAMOLECULARFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getIntResult(String, String) - Method in class org.jbiowh.core.utility.utils.SavedResults
Get internal result
getISA() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the ISA Tags
getIsAOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
getIsAOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
getIsLink() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getISLINKFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getISOBSOLETE() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the ISOBSOLETE Tags
getISOFORMFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getISOFORMTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getIsRepresentative() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getItem() - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
getjBClose() - Method in class org.jbiowh.gui.JBioWH
 
getjBOpen() - Method in class org.jbiowh.gui.JBioWH
 
getjBSearch() - Method in class org.jbiowh.gui.JBioWH
 
getjCDataSet() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
getjFileChooser1() - Method in class org.jbiowh.gui.component.file.FileChooser
Get the JFileChooser component
getJgraphStyle(Object) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the identifier for each DataSet entity
getjLConstrains() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
getjLFound() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Get the found label
getjLProgress() - Method in class org.jbiowh.gui.component.dialog.progress.ProgressDialog
 
getjMClose() - Method in class org.jbiowh.gui.JBioWH
 
getjMEdit() - Method in class org.jbiowh.gui.JBioWH
 
getjMOpen() - Method in class org.jbiowh.gui.JBioWH
 
getjMOpenSQLScript() - Method in class org.jbiowh.gui.JBioWH
 
getjMSQL() - Method in class org.jbiowh.gui.JBioWH
 
getjMTabs() - Method in class org.jbiowh.gui.JBioWH
 
getJournal() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getJpaExternalRelationship(Class, EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Return a map with the external relationship fields and its class for a JBioWH entity
getJpaExternalRelationship(Class, EntityManager) - Method in class org.jbiowh.core.utility.jparelationship.JpaRelationship
Return a map with the external relationship fields and its class for a JBioWH entity
getJpqlQuery(List, JPLConstrains) - Method in class org.jbiowh.core.dbms.sql.JPQLBuilder
This method create the JPL query
getjProgressBar() - Method in class org.jbiowh.gui.component.dialog.progress.ProgressDialog
 
getjScrollPane1() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
getjSQLEditor() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get the SQL editor pane
getjTabbedPane2() - Method in class org.jbiowh.gui.JBioWH
 
getjTable() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Get the Table
getjTDataSets() - Method in class org.jbiowh.gui.component.panel.HomePanel
Get the Dataset Table
getjTreeResult() - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Get the TreeResult
getjTSearch() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
getkEGGCompound() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
getkEGGCompound() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
getkEGGCompound() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getkEGGCompoundAsCofactor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGCompoundAsEffector() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGCompoundAsInhibitor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGCompoundAsProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGCompoundAsSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getKEGGCompoundCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
getkEGGCompoundDBLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getKEGGCompoundDBLinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
getKEGGCompoundLink(boolean, Collection<KEGGCompound>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the KEGGCompound action
getkEGGCompoundName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGCompounds() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getkEGGCompounds() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getKEGGCompoundWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
getkEGGCompoundWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
getKEGGCompoundWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
getkEGGEnzyme() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
getkEGGEnzyme() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
getkEGGEnzyme() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
getkEGGEnzyme() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
getkEGGEnzyme() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGEnzymeAsCofactor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGEnzymeAsEffector() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGEnzymeAsInhibitor() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGEnzymeClass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getKEGGEnzymeCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
getkEGGEnzymeDBLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getKEGGEnzymeDBLinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
getKEGGEnzymeLink(boolean, Collection<KEGGEnzyme>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the Enzyme action
getkEGGEnzymeName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGEnzymeNameDirectly() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGEnzymeOrthology() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getKEGGEnzymeOrthologyPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
getkEGGEnzymes() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getkEGGEnzymes() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getkEGGEnzymeSysName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getKEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
getkEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
getKEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
getKEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
getkEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
getKEGGEnzymeWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
getKeggFileName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFile
Get the KEGG file name
getkEGGGene() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
getkEGGGene() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getkEGGGene() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
getkEGGGene() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
getkEGGGene() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
getKEGGGeneCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
getkEGGGeneDBLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getKegggenedblinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
getKEGGGeneDBLinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
getkEGGGeneDisease() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getkEGGGeneDrugTarget() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getKEGGGeneDrugTargetPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
getKEGGGeneLink(boolean, Collection<KEGGGene>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the KEGGGene action
getkEGGGeneName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getkEGGGeneNameDirectly() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getkEGGGeneOrthology() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getKEGGGeneOrthologyPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
getkEGGGenes() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getkEGGGenes() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getKEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
getkEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getKEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getKEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
getkEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
getKEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
getKEGGGeneWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
getkEGGGlycan() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
getkEGGGlycan() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
getkEGGGlycanAsProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGGlycanAsSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGGlycanClass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getKEGGGlycanCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
getkEGGGlycanDBLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getKeggglycandblinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
getKEGGGlycanDBLinkPK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
getKEGGGlycanLink(boolean, Collection<KEGGGlycan>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the KEGGGlycan action
getkEGGGlycanName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getKEGGGlycanWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
getkEGGGlycanWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
getKEGGGlycanWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
getkEGGPathway() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getkEGGPathway() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getkEGGPathway() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getKEGGPathwayCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
getkEGGPathwayEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getkEGGPathwayEntry() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getkEGGPathwayEntryGraphic() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getkEGGPathwayEntryWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getKEGGPathwayEntryWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getKEGGPathwayLink(boolean, Collection<KEGGPathway>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the KEGGPathway action
getkEGGPathwayReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getkEGGPathwayRelation() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getkEGGPathwayRelation() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
getkEGGPathwayRelationSubType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getKeggpathwayrelationsubtypePK() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
getKEGGPathwayRelationWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGPathways() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getkEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getKEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getkEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getKEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getkEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getKEGGPathwayWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getkEGGReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getkEGGReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
getkEGGReactionAsProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGReactionAsProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getkEGGReactionAsSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getkEGGReactionAsSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getKEGGReactionCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
getKEGGReactionLink(boolean, Collection<KEGGReaction>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the KEGGReaction action
getkEGGReactionName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getkEGGReactions() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getkEGGReactionWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
getKEGGReactionWID() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
getkEGGRPair() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getKEGGRPairCount() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
getKEYFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getKeyword() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
getKEYWORDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.KeywordTags
 
getKeywords() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getKind() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getKind() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getKingdom() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
getKnownAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getLabel() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
getLabel() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
getLABELFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.InteractantTags
 
getLast() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the last gene on the chromosome
getLength() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getLength() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Return the column's length
getLENGTHFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getLevel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getLevel() - Method in class org.jbiowh.core.logger.VerbLogger
Return the information level to print the messages
getLEVELFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntrySetTags
 
getLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
getLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
getLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
getLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
getLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
getLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the link property.
getLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the link property.
getLINKFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getLinks() - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the basic data to show
getLinks() - Method in class org.jbiowh.gui.datasets.disease.OMIMDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.drug.DrugBankDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.gene.GeneDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.gene.GenePTTDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.ontology.OntologyDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.protein.ProteinDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.protfam.ProtFamDataSetView
 
getLinks() - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyDataSetView
 
getListToPrint(Collection, String) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the fields to print for a collection of DataSet and the file name
getListToPrint(Object, String) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the fields to print for a collection of DataSet and the file name
getLoadDate() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's load date
getLoadedBy() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's load user
getLoadedByDefault() - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Return the JBioWH entity's names that always are inserted during the JBioWH copy process
getLocation() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getLOCATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getLOCATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
getLocationType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getLOCATIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getLOCATIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getLocusTag() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getLogger() - Static method in class org.jbiowh.core.logger.VerbLogger
Return the logger
getLongColumnLabel(String, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Get the integer columnLabel value returned by the SQL sentence
getLongColumnLabel(String, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Get the integer columnLabel value returned by the SQL sentence
getMainField() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getMainField() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getMainField() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getMainField() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getMainField() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getMainField() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getMainField() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getMainField() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getMainField() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getMainField() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getMainField() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the main field name used it in the search
getMainURLParsed() - Method in class org.jbiowh.core.dbms.WHDBMS
Return the URL without the jdbc:// prefix
getMainURLParsed(WHDBMSFactory) - Method in class org.jbiowh.core.dbms.WHDBMS
Return the URL without the jdbc:// prefix
getManufacturer() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
getMapLocation() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getMass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getMass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getMass() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getMass() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getMass() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getMASSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getMASSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getMcgencode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getMechanismOfAction() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getMessages() - Method in exception org.jbiowh.core.utility.controller.exceptions.IllegalOrphanException
 
getMethod() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
getMethod() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getMethod() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getMETHODFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifBioSourceTypeCellType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifBioSourceTypeCompartment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifBioSourceTypeTissue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifBioSourceTypeTissueD() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifEntryExperiment() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMIFEntryExperimentCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
getmIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getmIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getmIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMIFEntryExperimentWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifEntryInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getmIFEntryInteraction() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getMIFEntryInteractionCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
getmIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getMIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getmIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getmIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMIFEntryInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifEntryInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getMIFEntryInteractorCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
getmIFEntryInteractorWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMIFEntryInteractorWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getmIFEntrySet() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMIFEntrySetCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
getMifEntrySetEntry() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getmIFEntrySetEntry() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifEntrySetEntry() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getmIFEntrySetEntry() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getmIFEntrySetEntry() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMIFEntrySetEntryCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
getmIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getmIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getmIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getmIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMIFEntrySetEntryWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getmIFEntrySetWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMifEntrySource() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getMifEntrySource() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifEntrySource() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifEntrySource() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getMifEntrySource() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMIFEntrySourceCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifExperimentFeatDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifExperimentInterDetecMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifExperimentPartIdentMethod() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifFeatureFeatDetMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifFeatureFeatureRange() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifFeatureFeatureType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifInferredInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getMIFInferredInteractionParticipantPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
getmIFInferredInteractionParticipantPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
getMifInteractionInferredInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifInteractionInferredInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
getMifInteractionInferredInteraction() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMIFInteractionInferredInteractionWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifInteractionInteractionType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getMifInteractionParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMIFInteractionParticipantCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
getmIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getmIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getmIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getmIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
getmIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMIFInteractionParticipantWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifInteractorInteractorType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getmIFOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherAlias() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getmIFOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifOtherAttribute() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherAvailability() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getmIFOtherAvailabilityPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
getMIFOtherAvailabilityPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
getMifOtherBibRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getmIFOtherBibRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMifOtherBibref() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherBibref() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherBioSourceType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMIFOtherBioSourceTypeCount() - Method in class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
getmIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getmIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getmIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMIFOtherBioSourceTypeWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifOtherConfidence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getmIFOtherExperimentRefPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMIFOtherExperimentRefPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getmIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMIFOtherWID() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
getMifOtherWIDExperimentRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getmIFOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherXRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherXRefGO() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherXRefPubMed() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherXRefRefSeq() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getMifOtherXRefUniprot() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifParticipantBiologicalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifParticipantExperimentalInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getMifParticipantExperimentalInteractor() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifParticipantExperimentalPreparation() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifParticipantExperimentalRole() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifParticipantFeature() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getmIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getMIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getmIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getMIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getmIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMIFParticipantFeatureWID() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getMifParticipantParameter() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMifParticipantParameter() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMIFParticipantParameterPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getmIFParticipantParameterPK() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getMifParticipantPartIdentMeth() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getMIMNumber() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getMIMNumber() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getMinorVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getMINORVERSIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntrySetTags
 
getModelEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getModelEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getModelEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getModelled() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getMODELLEDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getModelLength() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getModelStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getModelStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getModelStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getModificationDate() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getModified() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getModified() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getMODIFIED() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getMODIFIEDFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getMolecule() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getMOLECULEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getMonth() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getMouseCorr() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getMsvLambda() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getMsvMu() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getName() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getName() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
getName() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
getName() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's name
getName() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getName() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
getName() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
getNAME() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOCommonTags
Get the NAME tag
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Alt
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
Gets the value of the name property.
getName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getName() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
getName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
getName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
getNAME() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getName() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
getName() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getName() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Return the table's name
getName() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Return the column's name
getName() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index's name
getName() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Return the column's name
getNameAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getNAMEACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AttributeListTags
 
getNameClass() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
getNameClass() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.AttributeListTags
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneTags
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.OrganismTags
 
getNames() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
getNAMESFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getNameSpace() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getNAMESPACE() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the NAMESPACE Tags
getNCBITAXIDFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.BioSourceTypeTags
 
getNegative() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getNEGATIVEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
getNext() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the next gene to the current
getNodes() - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Get the nodes list
getNomenclatureStatus() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getNoSeqs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getNote() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getNoteEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getNOTEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getNumber() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getNumber() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getNumber() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getNumber() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the number property.
getNumber() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Return the column's number
getNumber() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index's number
getNumber() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Return the column's number
getNumberArchs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberArchs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getNumberArchs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getNumberMeta() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberNcbi() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getNumberSequences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getNumberShuffledHits() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberSpecies() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberSpecies() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getNumberSpecies() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getNumberStructures() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumberStructures() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getNumberStructures() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getNumDistinctRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getNumFull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumProteins() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getNumSeed() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getNumTotalRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getObserved() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
getOmim() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
getOmim() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getOmimAVs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOMIMCDPK() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
getOmimCDs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOMIMCNPK() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
getOmimCNs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOMIMCount() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
getOmimCS() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
getOmimCSDatas() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
getOmimCSs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOmimcsWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
getOMIMEDPK() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
getOmimEDs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getoMIMGeneMaps() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
getoMIMGeneMaps() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getOmimId() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOmimId() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getoMIMMethods() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getoMIMMorbidMaps() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getOmimRFs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOmimSAs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOMIMTIPK() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
getOmimTIs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOMIMTXPK() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
getOmimTXs() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
getOmimWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
getOntology() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
getOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
getOntology() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getOntologyAlternativeId() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyAlternativeIdPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
getOntologyCount() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
getOntologyhasOntologySynonym() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyhasOntologySynonym() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
getOntologyhasOntologySynonymPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
getOntologyIsA() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyIsAPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
getOntologyLink(boolean, Collection<Ontology>) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the Ontology action
getOntologyPMID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyPMIDPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
getOntologyRelation() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyRelationPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
getOntologySubset() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologySynonym() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
getOntologySynonymCount() - Method in class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
getOntologySynonymWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
getOntologyToConsider() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOntologyToConsiderPK() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
getOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
getOntologyXRef() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getOperation() - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
Get the Operation over constrain
getOrder() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Return the the column's order
getOrderAdded() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
getOrderAdded() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
getOrderNumber() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
getOrderNumber() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
getOrg() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getOrg() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the org property.
getORGANISMFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
getORGANISMFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.OrganismTags
 
getORGANISMHOSTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.OrganismTags
 
getOrganismsDiffer() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getORGANISMSDIFFERFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getORGANISMTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.OrganismTags
 
getOrientation() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getOrientation() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getORIENTATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
getOriginal() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getORIGINALFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getOtherDesignations() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getOtherGeneInfoWID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
getOtherOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
getOtherOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
getOtherParams() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getOtherParams() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getOtherPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getOtherWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getOutput() - Method in class org.jbiowh.core.logger.VerbLogger
Return the PrintStream used to print the messages
getPARAMETERFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getPARAMETERLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterListTags
 
getParentTaxId() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getParm() - Method in class org.jbiowh.core.dbms.sql.JPQLBuilder
 
getParticipant() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
getPARTICIPANTFEATUREREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionTags
 
getPARTICIPANTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionTags
 
getPARTICIPANTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getPARTICIPANTIDENTIFICATIONMETHODFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ExperimentDescriptionTags
 
getPARTICIPANTIDENTIFICATIONMETHODFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getPARTICIPANTIDENTIFICATIONMETHODLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
getPARTICIPANTLISTFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantListTags
 
getPARTICIPANTREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionTags
 
getParticipantType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
getPartner() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getPartner() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getPartner() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getPartner() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getPartner() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drugs
 
getPasswd() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return the MySQL DB password
getPasswd() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the MySQL DB password
getPatterList(BufferedReader, String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMBasicParser
Get a list with all fields into a OMIM field
getPdbEndIcode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPdbId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getPdbInsertCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPdbRes() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPdbResEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPdbResStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPdbSeqNumber() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPdbStartIcode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPercentageId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getPfamA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
getPfamAacc() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamACount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
getPfamADatabaseLinkses() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamAhasPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamAhasPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getPfamAhasPfamLiteratureReferencesPK() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
getPfamAid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamAInsignificant() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getPfamANCBIRegs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamAPDBRegs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getPfamArchitectureCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
getPfamArchitectures() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamArchitectures() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getPfamARegFullInsignificant() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
getPfamARegFullInsignificantCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
getPfamARegFullInsignificants() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamARegFullSignificant() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPfamARegFullSignificant() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
getPfamARegFullSignificantCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
getPfamARegFullSignificants() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamARegFullSignificantWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getPfamARegSeed() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamARegSeedPK() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
getPfamASignificant() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getPfamAWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
getPfamB() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getPfamBacc() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getPfamBCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
getPfamBid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getPfamBRegs() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getPfamBWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getPfamClanDatabaseLinkses() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getPfamClans() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getPfamClans() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
getPfamClansCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
getPfamClanses() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamClanses() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getPfamClanshasPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getPfamClanshasPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getPfamClanshasPfamLiteratureReferencesPK() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
getPfamClansWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getPfamClansWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
getPfamCompleteProteomes() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
getPfamCompleteProteomesCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
getPfamCompleteProteomesWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
getPfamContextRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamInterpros() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
getPfamLiteratureReferences() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
getPfamLiteratureReferencesCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
getPfamLiteratureReferencesWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
getPfamLiteratureReferencesWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
getPfamNestedLocationses() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamPDB() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPfamPDBResidueDatas() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getPfamPDBWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPfamProteomeRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPfamProteomeRegions() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getPfamProteomeRegionsCount() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
getPfamProteomeRegionsPK() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
getPfamSeqhasProtein() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getPfamSeqhasProtein() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getPfamSeqhasProteinPK() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
getPfamSeqhasUniProtId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
getPfamseqRes() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPfamseqSeqNumber() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getPFrom() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getPharmacology() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getPLength() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getPmid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getPmid() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
getPmid() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
getPmid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getPmid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
getPosition() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getPosition() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getPosition() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getPosition() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getPosition() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getPositionEnd() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getPOSITIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getPOSITIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getPositionStart() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getPositionStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getPOSITIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getPrecursor() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getPrecursor() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getPRECURSORFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getPreferredSize() - Method in class org.jbiowh.gui.component.tree.TreeSchemaRenderer
 
getPrevious() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the previous gene to the current
getPreviousId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPreviousId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getPreviousWID() - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
Get the WidTable's previous Id
getPrimaryRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getPrimaryRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getPrimaryRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getPrimaryRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getPrimaryRef() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getPRIMARYREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getPrintWriterFromName(String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Get the PrintWriter object fro the named file.
getProduct() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getProduct() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Gets the value of the product property.
getPROPERTYFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getPROPERTYTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getProtein() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getProtein() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getProtein() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getProtein() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getProtein() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getProtein() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getProtein() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getProtein() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getProtein() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
getProtein() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
getProteinAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getProteinAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getProteinAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
getProteinAccessionNumber() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinAccessionNumberPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
getProteinAccessionVersion() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getProteinAsCarriers() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getProteinAsEnzyme() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getProteinAsTransporters() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getProteinBinding() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getProteinBioCyc() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinBioCycPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getProteinComment() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getProteinCommentConflict() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentConflictPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
getProteinCommentEvent() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentEventPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
getProteinCommentInteract() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentInteractPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
getProteinCommentIsoform() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentIsoform() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
getProteinCommentIsoform() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
getProteinCommentIsoformWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
getProteinCommentIsoformWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
getProteinCommentLink() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentLinkPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
getProteinCommentSubCellularLocation() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
getProteinCommentWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getProteinCount() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
getProteinDBReference() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinDBReference() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
getProteinDBReferenceProperty() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getProteinDBReferencePropertyPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
getProteinDBReferenceWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
getProteinDIP() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinDIPPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
getProteinDrugBank() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinDrugBankPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
getProteinEC() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinECPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
getPROTEINEXISTENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getProteinFeature() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinFeature() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
getProteinFeatureVariation() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getProteinFeatureWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
getProteinFirstAccessionNumber() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getPROTEINFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getPROTEINFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getProteinFromId(List<String>) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
 
getProteinFromId(String) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
 
getProteinFromTaxonomy(String) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
Retrieve the proteins that belong the Taxonomy
getProteinFromTaxonomy(List<Taxonomy>) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
Retrieve the proteins that belong the Taxonomy list
getProteinFromTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
Return the proteins that belong the Taxonomy
getProteinGi() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getProteinGi() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getProteinhasProteinKeyword() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinhasProteinKeyword() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
getProteinhasProteinKeywordPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
getProteinInsignificant() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getProteinIntAct() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinIntActPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
getProteinIsoformId() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getProteinIsoformIdPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
getProteinIsoformName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getProteinIsoformNamePK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
getProteinKEGG() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinKEGGPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
getProteinKeyword() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
getProteinKeywordCount() - Method in class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
getProteinKeywordWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
getProteinLink(boolean, Object) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the Protein action
getProteinLongName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinLongNameDirected() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinMINT() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinMINTPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
getProteinName() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinNameDef() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getProteinNameDirected() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getPROTEINNAMEGROUPFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getProteinNamePK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
getProteinOtherLocation() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinPDB() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinPDBPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
getProteinPFAM() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinPFAMPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
getProteinPMID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getProteinPMIDPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
getProteinRefSeqPK() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
getProteins() - Method in class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
Return the list of founded proteins
getProteinSignificant() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getPROTEINTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getProteinWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getProteinWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getProteinWID() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
getProteinWID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
getPTo() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getPTTFile() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getRank() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getrClass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getRClass() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the reaction property.
getReaction() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the reaction property.
getRECOMMENDEDNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getRedoAction() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get the Redo Action
getRef() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getReference() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getReference() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
getREFERENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ReferenceTags
 
getREFFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getREFFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getREFFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getRefType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getRefType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getRefType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getRefType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getRefType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getRefTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getRefTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getRefTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getRefTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getRefTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getREFTYPEACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getREFTYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getRegionId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getRelation() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the relation property.
getRelationship() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
getRELATIONSHIP() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the RELATIONSHIP Tags
getReleaseDate() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's release date
getReleaseDate() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getRELEASEDATEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.SourceTags
 
getRELEASEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.SourceTags
 
getReleaseValue() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getRemark() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getRemark() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getRemark() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getResidueCoverage() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getResolution() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getResource() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
getResource() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
getRESOURCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getResult() - Method in class org.jbiowh.core.utility.utils.SavedResults
Get the result map
getResult(String) - Method in class org.jbiowh.core.utility.utils.SavedResults
Get the result object at index index
getResultPanel() - Method in class org.jbiowh.gui.component.panel.result.ResultPanelFactory
Get the Result Panel
getRNANucleotideAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getrNANucleotideAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getRNANucleotideAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getRNANucleotideAccessionVersion() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getRNANucleotideGi() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getRoute() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getRouteOfElimination() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
 
getRowCount() - Method in class org.jbiowh.gui.component.table.model.ListTableModel
 
getSa() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
getSchema(String) - Method in class org.jbiowh.core.dbms.WHDBMS
Return the WHDBMSFactory from its URL
getSchemas() - Method in class org.jbiowh.core.dbms.WHDBMS
Return the opened schemas
getScope() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
getSCOPE() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the SCOPE Tags
getScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getscrollCount() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Returns the number of items in the scrolling portion of the menu.
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
getSearchFactoryEntity() - Method in class org.jbiowh.core.utility.utils.SearchFactory
Get the main entity class
getSearchMethod() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSecondary() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getSecondary() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getSecondary() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getSecondary() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getSecondary() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getSECONDARYFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getSECONDARYREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getSeedConsensus() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSeedSource() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSelectedElements() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Get the list with the selected elements
getSeq() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getSeq() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getSeqEnd() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getSeqID() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
getSeqLength() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getSeqModified() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getSeqRef() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getSeqResource() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getSeqStart() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getSeqType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getSequence() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getSequence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getSequenceBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getSequenceBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getSequenceBitsScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getSequenceCoverage() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getSequenceEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getSequenceEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getSequenceEvalueScore() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getSEQUENCEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
getSEQUENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getSEQUENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getSEQUENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getSEQUENCEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getSequenceGA() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSequenceNC() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSequenceTC() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getSeqVersion() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getSeqVersion() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getSeqVersion() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
getSerial() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getShortLabel() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
Get the shortLabel value
getSHORTLABELFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getSHORTNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getSource() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getSource() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getSOURCEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.SourceTags
 
getSourceId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getSpecies() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getSqlFormat() - Method in class org.jbiowh.gui.sqltables.CreateTable
 
getSQLFunctionsAndOperators() - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLFunctionsAndOperators
Get the SQL Functions and Operators
getSQLReservedWords() - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLReservedWords
Get the SQL Reserved Words
getSQLSelection() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get the SQL sentences under selection
getSQLSpecialChars() - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLSpecialChar
Get the SQL special characters
getsQLTableViewPanel() - Method in class org.jbiowh.gui.component.panel.result.ResultPanelFactory
Get the SQL Table view panel
getStart() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getStartFullName() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getStartPositionOnTheGenomicAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getStartShortLabel() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getSTARTSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.FeatureRangeTags
 
getStatus() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
getStatus() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's status
getStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
getStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getStatus() - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
getSTATUS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EvidencedStringTypeTags
 
getSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
getSTATUSFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
getStrand() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getStrength() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getSUBCELLULARLOCATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
getSUBCELLULARLOCATIONTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
getSUBMITTEDNAMEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
getSUBSET() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the SUBSET Tags
getSUBSETDEF() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOHeaderTags
Get the SUBSETDEF tag
getSubstrate() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Gets the value of the substrate property.
getSubstructure() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
getSubtype() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Gets the value of the subtype property.
getSymbol() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getSymbolFromNomenclature() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getSynonym() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
getSynonym() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
getSYNONYM() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the SYNONYM Tags
getSynonym() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getSynonym() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
getSynonyms() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
getSYNONYMTEXT() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the SYNONYMTEXT Tags
getSynthesisRef() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getSySName() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
getTables() - Method in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
Return the OMIM's tables names in a list
getTables() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankTables
Return the Drugbank's tables names in a list
getTables() - Method in class org.jbiowh.core.datasets.gene.parser.GenePTTTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.gene.parser.GeneTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.mainloader.DataSetsTables
Return a list object with the tables names
getTables() - Method in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.protein.parser.ProteinTables
Return the Map object with the tables names and TSV files names
getTables() - Method in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
Return the Map object with the tables names and TSV files names
getTablesOnSchema() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
getTablesOnSchema() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the tables with its fields
getTag() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
getTagname() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
getTagname() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
getTags() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
 
getTaxId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getTaxID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getTaxId() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getTaxId() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getTaxId() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getTaxId() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
getTaxonomy() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
getTaxonomyCount() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
getTaxonomyDivisionWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getTaxonomyGenCodeWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getTaxonomyHost() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getTaxonomyMCGenCodeWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getTaxonomyPMIDPK() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
getTaxonomySynonym() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
Get the scientific name for this Taxonomy
getTaxonomySynonym(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getTaxonomySynonymNameClassWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
getTaxonomySynonymPK() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
getTaxonomyWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
getTaxonomyWID() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
getTempdir() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the temporal directory use to parse the data source
getTerm() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GO
 
getTERM() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the TERM Tags
getTerm() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getTermAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
getTERMACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getTERMFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getText() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getText() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
getTextEvidence() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getTEXTFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getTextStatus() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getTi() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
getTISSUEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.BioSourceTypeTags
 
getTitle() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getTitle() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getTitle() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getTitle() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getTitle() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Gets the value of the title property.
getTO() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the TO Tags
getToConsiderOntology() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
getToConsiderOntologyWID() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
getTopFixedCount() - Method in class org.jbiowh.gui.component.popup.MenuScroller
Returns the number of items fixed at the top of the menu or popup menu.
getTOPOLOGYFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
getTotalAaCovered() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getTotalAaLength() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getTotalGenomeProteins() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getTotalSeqsCovered() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getToxicity() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getTreeCellRendererComponent(JTree, Object, boolean, boolean, boolean, int, boolean) - Method in class org.jbiowh.gui.component.tree.TreeSchemaRenderer
 
getTreeOrder() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getTreeOrder() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getTreeOrder() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
getTx() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getTx() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
getTx() - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTXParser
Get the OMIM TX first line before any TAGS
getTxtData(Object) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the fields to be printed in txt format for each Dataset
getTxtDataFromCollection(Collection) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get a list with all fields to be printed from a Dataset collection
getType() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getType() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getType() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the data source type
getType() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
getType() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
getTYPE() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the TYPE Tags
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Gets the value of the type property.
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the type property.
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Gets the value of the type property.
getType() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Gets the value of the type property.
getType() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getType() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
getType() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getType() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
getType() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Property
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
getType() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getType() - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
 
getType() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Get the column's type
getType() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the index's type
getTypeAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getTYPEACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getTypeExample() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneLocationTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.GeneTags
 
getTYPEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
getTypeId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
getTypeOfGene() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getTypes() - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Return the class types for each column
getUncertainty() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getUNCERTAINTYFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getUndoAction() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Get the Undo Action
getUniGene() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
getUNIPROT() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getUniProtId() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
getUniProtKBProteinAccession() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Get the unique UUID for this object
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.ConstrainPanel
 
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.HomePanel
Return the unique Id for this object
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Return the unique Id for this object
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.sql.SQLBrowsePanel
Return the unique Id for this object
getUniqueKey() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Return the unique Id for this object
getUniref() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRef
 
getUniRefEntry() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
getUniRefEntry() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getUniRefEntry() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getUniRefEntryCount() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
getUniRefEntryProperty() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getUniRefEntryWID() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
getUniRefEntryWID() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getUniRefMember() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getUniRefMember() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
getUniRefMember() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getUniRefMemberCount() - Method in class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
getUniRefMemberProperty() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getUniRefMemberWID() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
getUniSTSID() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
getUnit() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getUnit() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getUnitAc() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
getUNITACFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getUNITFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceTags
 
getUNITFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
getUnparse() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getUpdated() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getUpdated() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getUpdated() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getUpdated() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getUri() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
getURIFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.CommentTags
 
getUrl() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
getUrl() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
getUrl() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
getUrl() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return the MySQL DB URL
getUrl() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the MySQL DB URL
getUrl() - Method in class org.jbiowh.gui.OpenWHDB
Return the URL opened
getUser() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Return the MySQL DB user
getUser() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return the MySQL DB user
getValue() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getValue() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getValue() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
getValue() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
Gets the value of the value property.
getValue() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
getValue() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
getValue() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Property
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
 
getValueAt(int, int) - Method in class org.jbiowh.gui.component.table.model.ListTableModel
 
getVALUEFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.ConfidenceTags
 
getVALUEFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.DBReferenceTags
 
getValueVal() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getVariation() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
getVARIATIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.FeatureTags
 
getVersion() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getVersion() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getVersion() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getVersion() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the the DataSet's version
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getVersion() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getVersion() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getVersion() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
getVERSION() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.EntryTags
 
getVERSIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.EntrySetTags
 
getVERSIONFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getVERSIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.ConflictTags
 
getVERSIONFLAGS() - Method in class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
getVertexToCellMap() - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
getViterbiLambda() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getViterbiMu() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getVolumeOfDistribution() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getWhdbmsFactory() - Method in class org.jbiowh.core.dbms.WHDBMS
Return the DBMS Factory
getWhdbmsFactory() - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Return the WHDBMS factory
getWHEntityManager() - Method in class org.jbiowh.core.dbms.WHDBMS
Return the Persistence EntityManagerFactory
getWHEntityManager(WHDBMSFactory) - Method in class org.jbiowh.core.dbms.WHDBMS
Return the Persistence EntityManagerFactory for a WHDBMS factory

Create the connection if the EntityManagerFactory does not exist
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
getWid() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
getWid() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
getWid() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
getWid() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
getWid() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
getWid() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
getWid() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Get the DataSet's Id
getWid() - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
Get the WidTable's Id
getWid() - Method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Return the WID value
getWid() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
getWid() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
getWid() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
getWid() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
getWid() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
getWid() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
getWID() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
getWid() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
getWid() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
getWid() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
getWid() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
getWid() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
getWid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
getWid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
getWid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
getWid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
getWid() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
getWID(Object) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
Get the WID for each DataSet entity
getWIDFromDataBase() - Method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Retrieve the WID entity from the database
getWidTableCount() - Method in class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Count all WidTable entities objects
getWidth() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getWidth() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the width property.
getX() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getX() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the x property.
getXREFANALOG() - Method in class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
Get the XREFANALOG Tags
getXREFFLAGS() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 
getXsdfiledef() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the Xsdfiledef parameter
getY() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
getY() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Gets the value of the y property.
getYear() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
GO - Class in org.jbiowh.core.datasets.ontology.parser.xml
This Class is the GO starting class for the SAX parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GO() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.GO
 
GOCommonTags - Class in org.jbiowh.core.datasets.ontology.parser.xml.tags
This Class storage the GO-Ontology common XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GOCommonTags() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOCommonTags
 
GOHeader - Class in org.jbiowh.core.datasets.ontology.parser.xml
This Class handled the HEADER XML Tag on the GO Ontology XML OBO file $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GOHeader() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.GOHeader
This constructor initialize the WH file manager and the WH DataSet manager
GOHeaderTags - Class in org.jbiowh.core.datasets.ontology.parser.xml.tags
This Class storage the GO-Ontology XML Header Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GOHeaderTags() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOHeaderTags
 
GOOntologyDefaultHandler - Class in org.jbiowh.core.datasets.ontology.parser.xml
This Class acts as DefaultHandler for the Ontology SaX Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GOOntologyDefaultHandler(GO) - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
GOTerm - Class in org.jbiowh.core.datasets.ontology.parser.xml
This Class is the Go Term XML Sax parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
GOTerm() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.GOTerm
This constructor initialize the WH file manager and the WH DataSet manager
GOTermTags - Class in org.jbiowh.core.datasets.ontology.parser.xml.tags
This Class storage the GO-Ontology XML Term Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
GOTermTags() - Constructor for class org.jbiowh.core.datasets.ontology.parser.xml.tags.GOTermTags
 
graph - Variable in class org.jbiowh.core.utility.graph.BioWHGraph
The graph object
graphAnal() - Method in class org.jbiowh.tools.examples.DrugPathwayGraph
 
graphics - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
Graphics - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Graphics XML parser from JAXB for KGML file format
Graphics() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
GROUP - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.GroupsTags
 
GROUPS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.GroupsTags
 
GroupsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Groups XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $

H

HALFLIFE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
hashCode() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
hashCode() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
hashCode() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
hashCode() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
hashCode() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
 
hashCode() - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
hashCode() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
hashCode() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
hashCode() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
hashCode() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
hashCode() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
hashCode() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
hashCode() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
hashCode() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
hashCode() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
hashCode() - Method in class org.jbiowh.core.dbms.sql.SQLTable
 
hashCode() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
 
hashCode() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
 
hashCode() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
 
HEADER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SequenceTypeTags
 
height - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
HideEdge - Class in org.jbiowh.core.utility.jparelationship.graph
This class is used to hide the edge label on the JGraph $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
HideEdge() - Constructor for class org.jbiowh.core.utility.jparelationship.graph.HideEdge
 
HomePanel - Class in org.jbiowh.gui.component.panel
This JPanel is the Home interface $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-09-25 00:06:19 +0200 (Tue, 25 Sep 2012) $ $LastChangedRevision: 396 $
HomePanel(JComponent, WHDBMSFactory) - Constructor for class org.jbiowh.gui.component.panel.HomePanel
Creates new form HomePanel
HostOrganismList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML HostOrganismList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
HostOrganismList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
This constructor initialize the WH file manager and the WH DataSet manager
HostOrganismListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML HostOrganismList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
HostOrganismListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.HostOrganismListTags
 

I

IconFetch - Class in org.jbiowh.gui.component.icons
This Class is hanlded the icon on the Close Tab $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
ID - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PartnerTags
 
ID - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
ID - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
id - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Component
 
id - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
id - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
 
id - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
id - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
 
ID - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
ID - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.PropertyTags
 
ID - Variable in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
IDENTIFIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalIdentifiersTags
 
IDENTIFIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.IdentifiersTypeTags
 
IDENTIFIER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PFamsTags
 
IdentifiersTypeTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the IdentifiersType XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
IllegalOrphanException - Exception in org.jbiowh.core.utility.controller.exceptions
 
IllegalOrphanException(List<String>) - Constructor for exception org.jbiowh.core.utility.controller.exceptions.IllegalOrphanException
 
image - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
increaseWid() - Method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Increase the WID value by one
INDICATION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
INDICATION - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
InferredInteraction - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML InferredInteraction Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InferredInteraction() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
This constructor initialize the WH file manager and the WH DataSet manager
InferredInteractionList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML InferredInteractionList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InferredInteractionList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
This constructor initialize the WH file manager and the WH DataSet manager
InferredInteractionListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML InferredInteractionList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InferredInteractionListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionListTags
 
InferredInteractionTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML InferredInteraction Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InferredInteractionTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InferredInteractionTags
 
INFO - Variable in class org.jbiowh.core.logger.VerbLogger
This is the info message information level
INGREDIENTS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.MixturesTags
 
INHIBITOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
insert(Object) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.transfer.OMIMTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.transfer.PFamATransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.transfer.DrugBankTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.transfer.GenePTTTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.gene.jpa.transfer.GeneTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.ontology.jpa.transfer.OntologyTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGCompoundTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGEnzymeTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGeneTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGlycanTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGPathwayTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGReactionTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntryInteractionTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetEntryTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefEntryTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefMemberTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.protein.jpa.transfer.ProteinTransfer
 
insert(Object) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.transfer.TaxonomyTransfer
 
insert(Object) - Method in class org.jbiowh.core.utility.jparelationship.JpaTransferBackEnd
Transfer the object into a JBioWH relational schema.
The object can be a collection of entities or a entity
insertAutoComplete(String) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Insert into the Document the auto completed word selected in the popup
insertDataSet() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Insert the DataSet into the database
InsertDBToDB - Class in org.jbiowh.tools.prototypes.insert
This example demonstrate how extract data from one JBioWH relational schema and insert that data into another JBioWH relational schema $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 396 $
InsertDBToDB() - Constructor for class org.jbiowh.tools.prototypes.insert.InsertDBToDB
 
insertOnCaretPosition(String) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Insert the string on the caret position
insertString(DocumentFilter.FilterBypass, int, String, AttributeSet) - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLDocumentFilter
 
Interactant - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Interactant tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Interactant() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Interactant
This constructor initialize the WH file manager and the WH DataSet manager
InteractantTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Interactant tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
InteractantTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.InteractantTags
 
Interaction - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Interaction Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Interaction() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
This constructor initialize the WH file manager and the WH DataSet manager
InteractionList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class hanlded the XML InteractionList tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractionList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
This constructor initialize the WH file manager and the WH DataSet manager
InteractionListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML InteractionList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractionListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionListTags
 
InteractionTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Interaction Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractionTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractionTags
 
Interactor - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Interactor Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Interactor() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
This constructor initialize the WH file manager and the WH DataSet manager
InteractorList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML InteractorList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractorList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
This constructor initialize the WH file manager and the WH DataSet manager
InteractorListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML InteractorList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractorListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorListTags
 
InteractorTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Interactor Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
InteractorTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.InteractorTags
 
isAI() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
True if column is AI
isAV(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isBooleanOperation(String) - Method in class org.jbiowh.core.utility.utils.SearchFactory
True is the operation is a boolean operation or not
isCancel() - Method in class org.jbiowh.gui.sqltables.CreateTable
 
isCanceled() - Method in class org.jbiowh.gui.OpenWHDB
Return true if the operation was canceled by the user
isCancelled() - Method in class org.jbiowh.gui.component.file.FileChooser
Get the JFileChooser status
isCAS(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is CAS type
isCD(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isCellEditable(int, int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
 
isCN(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isConnOpen() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
isConnOpen() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
True if the connection is open, false other wise.
isCS(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isDataSetInserted() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Check if the DataSet is inserted
isDigits(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string has only digits
isDroptables() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return the drop tables parameter
isDrugBankId(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is DrugBank Id type
isEC(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is EC type
isED(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isEmpty() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Returns true if this list contains no elements.
isEmpty() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Is true if there is not columns in the table
isEmpty() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Is true if there is not indexes in the table
isField(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isFill() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
isGOId(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is GO Id type
isGraphConnected() - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Return true if the graph is connected
isId(Object, String) - Method in class org.jbiowh.gui.datasets.EntityParserFieldProxy
True if the field belongs to some DataSet entity
isIsObsolete() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
isJbiowhSchema() - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
isJbiowhSchema() - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Return true is this connection belongs to a JBioWH default schema
isKEGGCompoundEntry(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is KEGG Compound Entry type
isKEGGGlycanEntry(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is KEGG Glycan Entry type
isKEGGPathwayEntry(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is KEGG Pathway Entry type
isKEGGPathwayNumber(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is KEGG Pathway Number type
isLong(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is Long type
isMain() - Method in class org.jbiowh.gui.OpenWHDB
Returns if the opened DB is selected as MainDB
isNN() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
True if column is NN
isNO(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
Isoform - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Isoform Tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Isoform() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Isoform
This constructor initialize the WH file manager and the WH DataSet manager
IsoformTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Isoform Tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
IsoformTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.IsoformTags
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
 
isOpen() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Availability
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVType
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Entry
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Feature
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
Get the open value
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Participant
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Source
 
isOpen() - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Xref
 
isOpen() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Entry
 
isOpen() - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Comment
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Conflict
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Feature
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Gene
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Interactant
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Isoform
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Keyword
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Location
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Organism
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Reference
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
isOpen() - Method in class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
 
isPK() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
True if column is PK
isProteinName(String) - Method in class org.jbiowh.core.utility.utils.BioWHPattern
Returns true if this string is Protein Name type
isRecord(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isRF(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isRunlinks() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Return true if the parser have to run the DataSet's links
isSA(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isTI(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isTX(String) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
isUQ() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
True if column is UQ
isWHDBMSFactoryOpen(WHDBMSFactory) - Method in class org.jbiowh.core.dbms.WHDBMS
Return true is the WHDBMSFactory is open

J

JBioWH - Class in org.jbiowh.gui
This JFrame is the main Frame on the JBioWH Desktop tool $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-09-18 14:59:00 +0200 (Tue, 18 Sep 2012) $ $LastChangedRevision: 396 $
JBioWH() - Constructor for class org.jbiowh.gui.JBioWH
Creates new form JBioWH
jCLinks - Variable in class org.jbiowh.gui.component.panel.AbstractDataSetView
 
JGraphXAdapter<V,E> - Class in org.jbiowh.core.utility.graph
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-27 15:25:50 +0100 (Wed, 27 Mar 2013) $ $LastChangedRevision: 515 $
JGraphXAdapter(ListenableGraph<V, E>) - Constructor for class org.jbiowh.core.utility.graph.JGraphXAdapter
 
JpaEntitiesSelected - Class in org.jbiowh.core.utility.jparelationship
This class is used to storage the JBioWH entities $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
JpaRelationship - Class in org.jbiowh.core.utility.jparelationship
This a class to handled JPA external relationship between the JBioWH entities $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
JpaTransfer - Interface in org.jbiowh.core.utility.jparelationship
This interface handled the JPA insertion into a JBioWH relational schema $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
JpaTransferBackEnd - Class in org.jbiowh.core.utility.jparelationship
This class is the backend class that implement the JpaTransfer interface to transfer a entity or a collection of entities to a JBioWH relational schema $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-27 15:25:50 +0100 (Wed, 27 Mar 2013) $ $LastChangedRevision: 515 $
JpaTransferBackEnd() - Constructor for class org.jbiowh.core.utility.jparelationship.JpaTransferBackEnd
 
JPLConstrains - Class in org.jbiowh.core.utility.constrains
This Class is the JPL constrains to perform dynamic searches $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
JPLConstrains(List, List<String>, List<String>) - Constructor for class org.jbiowh.core.utility.constrains.JPLConstrains
Create constrains using its parameters
JPLConstrains() - Constructor for class org.jbiowh.core.utility.constrains.JPLConstrains
Create an empty constrain
JPQLBuilder - Class in org.jbiowh.core.dbms.sql
This Class build a SQL sentence $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
JPQLBuilder(Class, String, HashMap<String, Class>, HashMap<String, String>, HashMap<String, String>, HashMap<String, String>, HashMap<Class, List>) - Constructor for class org.jbiowh.core.dbms.sql.JPQLBuilder
 
jTConstrains - Variable in class org.jbiowh.gui.component.panel.BasicConstrain
This table shows the Constrains
jTLinkAction(boolean) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Set the JComboBox action and the Table mouse click action
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.disease.OMIMDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.domain.pfam.PFamDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.drug.DrugBankDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.gene.GeneDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.gene.GenePTTDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.ontology.OntologyDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.KEGGPathwayDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.protein.ProteinDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.protfam.ProtFamDataSetView
 
jTLinkAction(boolean) - Method in class org.jbiowh.gui.datasets.taxonomy.TaxonomyDataSetView
 
jTLinks - Variable in class org.jbiowh.gui.component.panel.AbstractDataSetView
 
jTreeResult - Variable in class org.jbiowh.gui.component.panel.TreeViewPanel
 

K

keepVisible(JMenuItem) - Method in class org.jbiowh.gui.component.popup.MenuScroller
Scrolls the specified item into view each time the menu is opened.
keepVisible(int) - Method in class org.jbiowh.gui.component.popup.MenuScroller
Scrolls the item at the specified index into view each time the menu is opened.
KEGGCompound - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
This class is the KEGG Compound entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGCompound() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
KEGGCompound(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
KEGGCompound(Long, String, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
KEGGCOMPOUND - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCompound - Class in org.jbiowh.core.datasets.pathway.kegg.parser.ligand
This class is KEGG Compound parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGCompound() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGCompound
 
KEGGCOMPOUND_HAS_DRUGBANK - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCOMPOUND_HAS_KEGGPATHWAY - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCompoundDataSetView - Class in org.jbiowh.gui.datasets.pathway.compound
This Class handled the KEGGCompound View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGCompoundDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundDataSetView
Creates new form AbstractDataSetView
KEGGCompoundDBLink - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
This class is the KEGG Compound DBLink entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGCompoundDBLink() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
KEGGCompoundDBLink(KEGGCompoundDBLinkPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
KEGGCompoundDBLink(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
KEGGCOMPOUNDDBLINK - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
keggcompounddblinkPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
KEGGCompoundDBLinkPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
This class is the KEGG Compound DBLink PK entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGCompoundDBLinkPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
KEGGCompoundDBLinkPK(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
KEGGCompoundDrugBankLink - Class in org.jbiowh.core.datasets.pathway.kegg.parser.links
This Class is the KEGGCompound DrugBank link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGCOMPOUNDENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCompoundJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGG Compound Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGCompoundJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGCompoundJpaController
 
KEGGCompoundListView - Class in org.jbiowh.gui.datasets.pathway.compound
This Class show the KEGG Compound List view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGCompoundListView(Collection<KEGGCompound>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.compound.KEGGCompoundListView
Create the KEGGCompound List object
KEGGCompoundName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
This class is the KEGG Compound Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGCompoundName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
KEGGCompoundName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
KEGGCompoundName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
KEGGCOMPOUNDNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCOMPOUNDPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCOMPOUNDREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGCompoundTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGCompound transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
KEGGCompoundTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGCompoundTransfer
Create the KEGGCompound transfer
KEGGCompoundTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGCompoundTransfer
Create the KEGGCompound transfer
KEGGEnzyme - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGG Enzyme entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 322 $
KEGGEnzyme() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
KEGGEnzyme(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
KEGGEnzyme(Long, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
KEGGENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzyme - Class in org.jbiowh.core.datasets.pathway.kegg.parser.ligand
This class is the KEGG Enzyme parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGEnzyme() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGEnzyme
 
KEGGENZYME_HAS_KEGGCOMPOUND_AS_COFACTOR - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYME_HAS_KEGGCOMPOUND_AS_EFFECTOR - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYME_HAS_KEGGCOMPOUND_AS_INHIBITOR - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYME_HAS_KEGGENZYMECLASS - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYME_HAS_KEGGPATHWAY - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMEALLREAC - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeClass - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGGEnzymeClass entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeClass() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
KEGGEnzymeClass(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
KEGGENZYMECLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMECLASSTEMP - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMECOFACTOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeDataSetView - Class in org.jbiowh.gui.datasets.pathway.enzyme
This Class handled the KEGGEnzyme View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeDataSetView
Creates new form AbstractDataSetView
KEGGEnzymeDBLink - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGG Enzyme DBLink entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeDBLink() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
KEGGEnzymeDBLink(KEGGEnzymeDBLinkPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
KEGGEnzymeDBLink(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
KEGGENZYMEDBLINK - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
kEGGEnzymeDBLinkPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
KEGGEnzymeDBLinkPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGG Enzyme DBLink PK entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeDBLinkPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
KEGGEnzymeDBLinkPK(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
KEGGENZYMEEFFECTOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMEGENES - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMEINHIBITOR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGG Enzyme Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGEnzymeJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGEnzymeJpaController
 
KEGGEnzymeListView - Class in org.jbiowh.gui.datasets.pathway.enzyme
This Class show the KEGG Enzyme List view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeListView(Collection<KEGGEnzyme>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.enzyme.KEGGEnzymeListView
Create the KEGGEnzyme List object
KEGGEnzymeName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGG Enzyme Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
KEGGEnzymeName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
KEGGEnzymeName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
KEGGENZYMENAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeOrthology - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This Class is the KEGG Enzyme Orthology entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeOrthology() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
KEGGEnzymeOrthology(KEGGEnzymeOrthologyPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
KEGGEnzymeOrthology(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
KEGGENZYMEORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
kEGGEnzymeOrthologyPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
KEGGEnzymeOrthologyPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeOrthologyPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
KEGGEnzymeOrthologyPK(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
KEGGENZYMEPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMEPRODUCT - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMEREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGENZYMESUBSTRATE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeSysName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
This class is the KEGG Enzyme SysName entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGEnzymeSysName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
KEGGEnzymeSysName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
KEGGEnzymeSysName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
KEGGENZYMESYSNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGEnzymeTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGEnzyme transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
KEGGEnzymeTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGEnzymeTransfer
Create the KEGGEnzyme transfer
KEGGEnzymeTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGEnzymeTransfer
Create the KEGGEnzyme transfer
KEGGGene - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This class is THE KEGG Gene entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGGene() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
KEGGGene(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
KEGGGene(Long, String, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
KEGGGene - Class in org.jbiowh.core.datasets.pathway.kegg.parser.gene
This class is the KEGG Gene parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGGene() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.gene.KEGGGene
 
KEGGGENE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGENE_HAS_KEGGPATHWAY - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGeneDataSetView - Class in org.jbiowh.gui.datasets.pathway.gene
This Class handled the KEGGGene View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneDataSetView
Creates new form AbstractDataSetView
KEGGGeneDBLink - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This class is the KEGG Gene DBLink entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDBLink() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
KEGGGeneDBLink(KEGGGeneDBLinkPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
KEGGGeneDBLink(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
KEGGGENEDBLINK - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
kegggenedblinkPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
KEGGGeneDBLinkPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This class is the KEGG Gene DBLink PK entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDBLinkPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
KEGGGeneDBLinkPK(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
KEGGGeneDisease - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This class is the KEGGGeneDisease entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDisease() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
KEGGGeneDisease(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
KEGGGeneDisease(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
KEGGGENEDISEASE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGeneDrugTarget - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This Class is THE KEGG Gene DrugTarget entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDrugTarget() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
KEGGGeneDrugTarget(KEGGGeneDrugTargetPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
KEGGGeneDrugTarget(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
KEGGGENEDRUGTARGET - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
kEGGGeneDrugTargetPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
KEGGGeneDrugTargetPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneDrugTargetPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
KEGGGeneDrugTargetPK(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
KEGGGeneJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGGGene Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGGeneJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGeneJpaController
 
KEGGGeneListView - Class in org.jbiowh.gui.datasets.pathway.gene
This Class shows the KEGG Gene List view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneListView(Collection<KEGGGene>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.gene.KEGGGeneListView
Create the KEGGGeneList List object
KEGGGeneName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This class is the KEGG Gene Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
KEGGGeneName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
KEGGGeneName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
KEGGGENENAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGeneOrthology - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This Class is THE KEGG Gene Orthology entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneOrthology() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
KEGGGeneOrthology(KEGGGeneOrthologyPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
KEGGGeneOrthology(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
KEGGGENEORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
kEGGGeneOrthologyPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
KEGGGeneOrthologyPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGeneOrthologyPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
KEGGGeneOrthologyPK(long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
KEGGGENEPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGeneTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGGene transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGGeneTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGeneTransfer
Create the KEGGGene transfer
KEGGGeneTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGeneTransfer
Create the KEGGGene transfer
KEGGGlycan - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
This class is the KEGG Glycan entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGGlycan() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
KEGGGlycan(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
KEGGGlycan(Long, String, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
KEGGGLYCAN - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGlycan - Class in org.jbiowh.core.datasets.pathway.kegg.parser.ligand
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGGlycan() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGGlycan
 
KEGGGLYCAN_HAS_KEGGGLYCANCLASS - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGlycanClass - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
This class is KEGG Glycan Class entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanClass() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
KEGGGlycanClass(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
KEGGGLYCANCLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGLYCANCLASSTEMP - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGlycanDataSetView - Class in org.jbiowh.gui.datasets.pathway.glycan
This Class handled the KEGGGlycan View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanDataSetView
 
KEGGGlycanDBLink - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
This class is the KEGG Glycan DBLink entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanDBLink() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
KEGGGlycanDBLink(KEGGGlycanDBLinkPK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
KEGGGlycanDBLink(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
KEGGGLYCANDBLINK - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
keggglycandblinkPK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
KEGGGlycanDBLinkPK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
This class is KEGG Glycan DBLink PK entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanDBLinkPK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
KEGGGlycanDBLinkPK(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
KEGGGLYCANENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGlycanJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGGGlycan Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGGlycanJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGGlycanJpaController
 
KEGGGlycanListView - Class in org.jbiowh.gui.datasets.pathway.glycan
This Class show the KEGG Glycan List view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanListView(Collection<KEGGGlycan>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.glycan.KEGGGlycanListView
Create the KEGGGlycan List object
KEGGGlycanName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
This class is the KEGGGlycanName entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGGlycanName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
KEGGGlycanName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
KEGGGlycanName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
KEGGGLYCANNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGLYCANORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGLYCANPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGLYCANREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGGlycanTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGGlycan transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
KEGGGlycanTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGlycanTransfer
Create the KEGGGlycan transfer
KEGGGlycanTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGGlycanTransfer
Create the KEGGGlycan transfer
KEGGLinks - Class in org.jbiowh.core.datasets.pathway.kegg.parser.links
This class create all KEGG external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGParser - Class in org.jbiowh.core.datasets.pathway.kegg.parser
This class is the KEGG Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGParser() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGParser
 
KEGGParserEntry - Class in org.jbiowh.core.datasets.pathway.kegg.parser.utility
This class is storage the KEGG ENTRY data $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGParserEntry() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
 
KEGGParserFactory - Interface in org.jbiowh.core.datasets.pathway.kegg.parser.utility
This interface is the KEGG Parser Factory $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGParserFieldTags - Class in org.jbiowh.core.datasets.pathway.kegg.parser.utility
This class is the KEGG Flat file field definition $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGParserFieldTags() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
KEGGParserFile - Class in org.jbiowh.core.datasets.pathway.kegg.parser.utility
This class is the KEGG Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGParserFile(String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFile
Create the KEGGParserFile object from the file name
KEGGParserFile(String, File) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFile
Create the KEGGParserFile object from the file object
KEGGPathway - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGPathway() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
KEGGPathway(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
KEGGPathway(Long, String, String, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
KEGGPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAY_HAS_GENEINFO - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAY_HAS_PROTEN - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAY_HAS_TAXONOMY - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPathwayDataSetView - Class in org.jbiowh.gui.datasets.pathway
This Class handled the KEGGPathway View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.KEGGPathwayDataSetView
Creates new form AbstractDataSetView
KEGGPathwayEntry - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Entry entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayEntry() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
KEGGPathwayEntry(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
KEGGPathwayEntry(Long, long, int, String, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
KEGGPATHWAYENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYENTRYCOMPOUND - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYENTRYENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYENTRYGENE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPathwayEntryGraphic - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Entry Graphic entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayEntryGraphic() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
KEGGPathwayEntryGraphic(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
KEGGPathwayEntryGraphic(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
KEGGPATHWAYENTRYGRAPHIC - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYENTRYORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYENTRYREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPathwayGeneInfoLink - Class in org.jbiowh.core.datasets.pathway.kegg.parser.links
This Class create the KEGGPathway_has_GeneInfo relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGPathwayJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGGPathway Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGPathwayJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGPathwayJpaController
 
KEGGPathwayListView - Class in org.jbiowh.gui.datasets.pathway
This Class shows the KEGGPathway List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayListView(Collection<KEGGPathway>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.KEGGPathwayListView
Create the KEGGPathway List object
KEGGPathwayProteinLink - Class in org.jbiowh.core.datasets.pathway.kegg.parser.links
This Class create the KEGGPathway_has_Protein relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGPathwayReaction - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Reaction entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayReaction() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
KEGGPathwayReaction(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
KEGGPathwayReaction(Long, long, int, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
KEGGPATHWAYREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYREACTIONPRODUCT - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPATHWAYREACTIONSUBSTRATE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPathwayRelation - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Relation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayRelation() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
KEGGPathwayRelation(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
KEGGPathwayRelation(Long, long, int, int) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
KEGGPATHWAYRELATION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGPathwayRelationSubType - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Relation SubType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayRelationSubType() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
KEGGPathwayRelationSubType(KEGGPathwayRelationSubTypePK) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
KEGGPathwayRelationSubType(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
KEGGPATHWAYRELATIONSUBTYPE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
keggpathwayrelationsubtypePK - Variable in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
KEGGPathwayRelationSubTypePK - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
This class is the KEGG Pathway Relation SubType PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGPathwayRelationSubTypePK() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
KEGGPathwayRelationSubTypePK(long, String, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
KEGGPathwayTaxonomyLink - Class in org.jbiowh.core.datasets.pathway.kegg.parser.links
This class is the KEGGPathway Taxonomy link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGPathwayTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGPathway transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
KEGGPathwayTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGPathwayTransfer
Create the KEGGPathway transfer
KEGGPathwayTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGPathwayTransfer
Create the KEGGPathway transfer
KEGGReaction - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction
This class is the KEGGReaction entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGReaction() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
KEGGReaction(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
KEGGReaction(Long, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
KEGGREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGReaction - Class in org.jbiowh.core.datasets.pathway.kegg.parser.ligand
This class is KEGG Reaction parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGReaction() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGReaction
 
KEGGREACTION_HAS_KEGGCOMPOUND_AS_PRODUCT - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTION_HAS_KEGGCOMPOUND_AS_SUBSTRATE - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTION_HAS_KEGGENZYME - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTION_HAS_KEGGGLYCAN_AS_PRODUCT - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTION_HAS_KEGGGLYCAN_AS_SUBSTRATE - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTION_HAS_KEGGPATHWAY - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGReactionDataSetView - Class in org.jbiowh.gui.datasets.pathway.reaction
This Class handled the KEGGReaction View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGReactionDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionDataSetView
Creates new form AbstractDataSetView
KEGGREACTIONENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGReactionJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGG Reaction Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGReactionJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGReactionJpaController
 
KEGGReactionListView - Class in org.jbiowh.gui.datasets.pathway.reaction
This Class shows the KEGG Reaction List view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGReactionListView(Collection<KEGGReaction>, JComponent) - Constructor for class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionListView
Create the KEGGReaction List object
KEGGReactionName - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction
This class is the KEGG Reaction Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KEGGReactionName() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
KEGGReactionName(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
KEGGReactionName(Long, long, String) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
KEGGREACTIONNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTIONORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTIONPATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTIONPRODUCT - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTIONRPAIR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGREACTIONSUBSTRATE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGReactionTransfer - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
This class handled the KEGGReaction transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
KEGGReactionTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGReactionTransfer
Create the KEGGReaction transfer
KEGGReactionTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.transfer.KEGGReactionTransfer
Create the KEGGReaction transfer
KEGGRPair - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
This class is the KEGGRPair entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGRPair() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
KEGGRPair(Long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
KEGGRPair(Long, String, String, String, String, long) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
KEGGRPAIR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPair - Class in org.jbiowh.core.datasets.pathway.kegg.parser.ligand
This class is is KEGG Rpair parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
KEGGRPair() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGRPair
 
KEGGRPAIR_HAS_KEGGCOMPOUND - Static variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPAIRCOMPOUND - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPAIRENZYME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPairJpaController - Class in org.jbiowh.core.datasets.pathway.kegg.jpa.controller
This class is the KEGG RPair Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
KEGGRPairJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.pathway.kegg.jpa.controller.KEGGRPairJpaController
 
KEGGRPAIRREACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPAIRRELATEDPAIR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGRPAIRRELATEDPAIRTEMP - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGTables
 
KEGGTables - Class in org.jbiowh.core.datasets.pathway.kegg.parser
This class is the KEGG tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Keyword - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Keyword tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Keyword() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Keyword
This constructor initialize the WH file manager and the WH DataSet manager
KeywordTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Keyword Tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
KeywordTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.KeywordTags
 
KIND - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PropertyTypeTags
 
KINGDOM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
KNOWNACTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TargetBondTypeTags
 

L

link - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
link - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
listeners - Variable in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
listResult(String) - Method in class org.jbiowh.core.utility.utils.SavedResults
Return a set with the field to be visualized by dataset
ListTableModel - Class in org.jbiowh.gui.component.table.model
This class is the list Table Model $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
ListTableModel(String[], List<List<Object>>, Class[], boolean[]) - Constructor for class org.jbiowh.gui.component.table.model.ListTableModel
Create a list table model
ListViewProxy - Class in org.jbiowh.gui.datasets
This Class is the List View Factory $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
loadData() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.files.PFamSQLfiles
 
loadDataSet() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Load all DataSets into a Object[][] object
loadDataSet(EntityManagerFactory) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Load all DataSets into a Object[][] object
loader() - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.GeneMapParser
This method load the data in genemap file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.MorbidMapParser
This method load the data in morbidmap file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTXTParser
 
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2AccessionParser
This method load the data in gene2accession file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2EnsemblParser
This method load the data in gene2ensembl file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2GOParser
This method load the data in gene2go file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2MIMParser
This method load the data in gene2mim file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2PMIDParser
This method load the data in gene2pmid file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2STSParser
This method load the data in gene2sts file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.Gene2UniGeneParser
This method load the data in gene2unigene file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.GeneGroupParser
This method load the data in gene_group file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.GeneHistoryParser
This method load the data in gene_history file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.GeneInfoParser
This method load the data in gene_info file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.files.GeneRefseqUniProtParser
This method load the data in gene_refseq_uniprotkb_collab file to its relational tables
loader() - Method in class org.jbiowh.core.datasets.gene.parser.GenePTTParser
This method load the data in gene_info file to its relational tables
loadSQLScript(WHDBMSFactory) - Method in class org.jbiowh.core.datasets.domain.pfam.parser.files.PFamSQLReader
 
loadTSVFile(String, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table
loadTSVFile(String, String, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table
loadTSVFile(String, File) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table
loadTSVFile(String, File, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table
loadTSVFile(String, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table
loadTSVFile(String, String, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table
loadTSVFile(String, File) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table
loadTSVFile(String, File, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table
loadTSVFileIgnore(String, File) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table with the ignore option
loadTSVFileIgnore(String, File, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Load TSV into the Table table with the ignore option
loadTSVFileIgnore(String, File) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table with the ignore option
loadTSVFileIgnore(String, File, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Load TSV into the Table table with the ignore option
loadTSVTables(List) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
This method load all tables into the DBMS
loadTSVTables(List) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
This method load all tables into the DBMS
Location - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Location tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Location() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Location
This constructor initialize the WH file manager and the WH DataSet manager
LocationTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Location tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
LocationTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.LocationTags
 
LOCUSTAG - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
log(Class, String) - Method in class org.jbiowh.core.logger.VerbLogger
Creates a formated logger message
LONGNAME - Variable in class org.jbiowh.core.datasets.protein.search.SearchProtein
 

M

main(String[]) - Static method in class org.jbiowh.core.datasets.mainloader.DataSetLoader
This is the Main to parse and insert the DataSet
main(String[]) - Static method in class org.jbiowh.core.utility.graph.NewMain
 
main(String[]) - Static method in class org.jbiowh.gui.JBioWH
 
main(String[]) - Static method in class org.jbiowh.tools.dataset.DataSetReport
 
main(String[]) - Static method in class org.jbiowh.tools.examples.AntibioticGeneNeighbors
Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.AntibioticGeneNeighborTax
Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.DrugPathwayGraph
This is the Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.DrugPathwayGraphFrame
 
main(String[]) - Static method in class org.jbiowh.tools.examples.FindALLHumProt
This is the Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.FindALLHumProtinGO
This is the Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.FindALLHumProtinGOwithConst
This is the Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.FindGenefromDrug
This is the Main method
main(String[]) - Static method in class org.jbiowh.tools.examples.FrecPathGeneNeighbors
The main method
main(String[]) - Static method in class org.jbiowh.tools.gene.FindGenefromProteinGi
Find genes in the JBioWH relational schema from the command line
main(String[]) - Static method in class org.jbiowh.tools.gene.GenesDrugsFromTaxonomyFamily
 
main(String[]) - Static method in class org.jbiowh.tools.protein.FindProtein
 
main(String[]) - Static method in class org.jbiowh.tools.protein.FindProteinFromTaxonomy
 
main(String[]) - Static method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
Connect to the main database on hydra.icgeb.trieste.it Connect to a local database named biowh and transfer the results from the main database to the local database
main(String[]) - Static method in class org.jbiowh.tools.prototypes.temp.Test
 
main(String[]) - Static method in class org.jbiowh.tools.prototypes.temp.TestFrame
 
main(String[]) - Static method in class org.jbiowh.tools.taxonomy.FindTaxonomyGraph
 
MANUFACTURER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ManufacturersTags
 
MANUFACTURERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ManufacturersTags
 
ManufacturersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Manufacturers XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
MASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
MECHANISMOFACTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
MEMBER - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
MemberType - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is the MemberType XML parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MemberType(String) - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
This constructor initialize the WH file manager and the WH DataSet manager
MemberTypeTags - Class in org.jbiowh.core.datasets.protclust.parser.xml.tags
This Class is the RepresentativeMember XML tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MemberTypeTags() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.tags.MemberTypeTags
 
MenuScroller - Class in org.jbiowh.gui.component.popup
A class that provides scrolling capabilities to a long menu dropdown or popup menu.
MenuScroller(JMenu) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a menu with the default number of items to display at a time, and default scrolling interval.
MenuScroller(JPopupMenu) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a popup menu with the default number of items to display at a time, and default scrolling interval.
MenuScroller(JMenu, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a menu with the specified number of items to display at a time, and default scrolling interval.
MenuScroller(JPopupMenu, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a popup menu with the specified number of items to display at a time, and default scrolling interval.
MenuScroller(JMenu, int, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a menu with the specified number of items to display at a time, and specified scrolling interval.
MenuScroller(JPopupMenu, int, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a popup menu with the specified number of items to display at a time, and specified scrolling interval.
MenuScroller(JMenu, int, int, int, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a menu with the specified number of items to display in the scrolling region, the specified scrolling interval, and the specified numbers of items fixed at the top and bottom of the menu.
MenuScroller(JPopupMenu, int, int, int, int) - Constructor for class org.jbiowh.gui.component.popup.MenuScroller
Constructs a MenuScroller that scrolls a popup menu with the specified number of items to display in the scrolling region, the specified scrolling interval, and the specified numbers of items fixed at the top and bottom of the popup menu.
MIF25 - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class is the XML start point for MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIF25() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.MIF25
 
MIF25DefaultHandler - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class is the default handler for MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIF25DefaultHandler(MIF25) - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.MIF25DefaultHandler
 
MIF25Links - Class in org.jbiowh.core.datasets.ppi.parser.links
This Class create all MIF25 external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIF25Parser - Class in org.jbiowh.core.datasets.ppi.parser
This Class is the MIF25 parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIF25Parser() - Constructor for class org.jbiowh.core.datasets.ppi.parser.MIF25Parser
 
MIF25ProteinLink - Class in org.jbiowh.core.datasets.ppi.parser.links
This Class create the MIFInteraction_has_Protein relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIF25Tables - Class in org.jbiowh.core.datasets.ppi.parser
This Class is the MIF25 Tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFBioSourceTypeCellType - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFBioSourceTypeCellType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFBioSourceTypeCellType() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
MIFBioSourceTypeCellType(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
MIFBioSourceTypeCellType(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
MIFBIOSOURCETYPECELLTYPE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFBioSourceTypeCompartment - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFBioSourceTypeCompartment entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFBioSourceTypeCompartment() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
MIFBioSourceTypeCompartment(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
MIFBioSourceTypeCompartment(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
MIFBIOSOURCETYPECOMPARTMENT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFBioSourceTypeTissue - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFBioSourceTypeTissue entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFBioSourceTypeTissue() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
MIFBioSourceTypeTissue(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
MIFBioSourceTypeTissue(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
MIFBIOSOURCETYPETISSUE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntryExperiment - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntryExperiment entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntryExperiment() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
MIFEntryExperiment(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
MIFEntryExperiment(Long, long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
MIFENTRYEXPERIMENT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntryExperimentJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntryExperiment Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFEntryExperimentJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryExperimentJpaController
 
MIFEntryInteraction - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntryInteraction entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 322 $
MIFEntryInteraction() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
MIFEntryInteraction(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
MIFEntryInteraction(Long, long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
MIFENTRYINTERACTION - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntryInteractionJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntryInteraction Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFEntryInteractionJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractionJpaController
 
MIFEntryInteractionTransfer - Class in org.jbiowh.core.datasets.ppi.jpa.transfer
This class handled the MIFEntryInteraction transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntryInteractionTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntryInteractionTransfer
Create the MIFEntryInteraction transfer
MIFEntryInteractionTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntryInteractionTransfer
Create the MIFEntryInteraction transfer
MIFEntryInteractor - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntryInteractor entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntryInteractor() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
MIFEntryInteractor(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
MIFEntryInteractor(Long, long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
MIFENTRYINTERACTOR - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntryInteractorJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntryInteractor Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFEntryInteractorJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntryInteractorJpaController
 
MIFEntrySet - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntrySet entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntrySet() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
MIFEntrySet(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
MIFEntrySet(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
MIFENTRYSET - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntrySetEntry - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntrySetEntry entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 322 $
MIFEntrySetEntry() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
MIFEntrySetEntry(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
MIFEntrySetEntry(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
MIFENTRYSETENTRY - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntrySetEntryJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntrySetEntry Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFEntrySetEntryJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetEntryJpaController
 
MIFEntrySetEntryTransfer - Class in org.jbiowh.core.datasets.ppi.jpa.transfer
This class handled the MIFEntrySetEntry transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntrySetEntryTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetEntryTransfer
Create the MIFEntrySetEntry transfer
MIFEntrySetEntryTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetEntryTransfer
Create the MIFEntrySetEntry transfer
MIFEntrySetJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntrySet Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntrySetJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySetJpaController
 
MIFEntrySetTransfer - Class in org.jbiowh.core.datasets.ppi.jpa.transfer
This class handled the MIFEntrySet transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntrySetTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetTransfer
Create the MIFEntrySet transfer
MIFEntrySetTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.transfer.MIFEntrySetTransfer
Create the MIFEntrySet transfer
MIFEntrySource - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFEntrySource entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFEntrySource() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
MIFEntrySource(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
MIFEntrySource(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
MIFENTRYSOURCE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFEntrySourceJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFEntrySource Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFEntrySourceJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFEntrySourceJpaController
 
MIFExperimentFeatDetecMethod - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFExperimentFeatDetecMethod entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFExperimentFeatDetecMethod() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
MIFExperimentFeatDetecMethod(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
MIFExperimentFeatDetecMethod(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
MIFEXPERIMENTFEATDETECMETHOD - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFExperimentInterDetecMethod - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFExperimentInterDetecMethod entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFExperimentInterDetecMethod() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
MIFExperimentInterDetecMethod(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
MIFExperimentInterDetecMethod(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
MIFEXPERIMENTINTERDETECMETHOD - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFExperimentPartIdentMethod - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFExperimentPartIdentMethod entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFExperimentPartIdentMethod() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
MIFExperimentPartIdentMethod(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
MIFExperimentPartIdentMethod(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
MIFEXPERIMENTPARTIDENTMETHOD - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFFeatureFeatDetMeth - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFFeatureFeatDetMeth entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFFeatureFeatDetMeth() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
MIFFeatureFeatDetMeth(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
MIFFeatureFeatDetMeth(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
MIFFEATUREFEATDETMETH - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFFeatureFeatureRange - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFFeatureFeatureRange entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFFeatureFeatureRange() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
MIFFeatureFeatureRange(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
MIFFeatureFeatureRange(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
MIFFEATUREFEATURERANGE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFFeatureFeatureType - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFFeatureFeatureType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFFeatureFeatureType() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
MIFFeatureFeatureType(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
MIFFeatureFeatureType(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
MIFFEATUREFEATURETYPE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFInferredInteractionParticipant - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInferredInteractionParticipant entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInferredInteractionParticipant() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
MIFInferredInteractionParticipant(MIFInferredInteractionParticipantPK) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
MIFInferredInteractionParticipant(long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
MIFINFERREDINTERACTIONPARTICIPANT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
mIFInferredInteractionParticipantPK - Variable in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
MIFInferredInteractionParticipantPK - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInferredInteractionParticipantPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInferredInteractionParticipantPK() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
MIFInferredInteractionParticipantPK(long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
MIFINTERACTION_HAS_PROTEIN - Static variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFINTERACTION_HAS_PROTEIN_TEMP - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFINTERACTIONCOUNT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFInteractionInferredInteraction - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInteractionInferredInteraction entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInteractionInferredInteraction() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
MIFInteractionInferredInteraction(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
MIFInteractionInferredInteraction(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
MIFINTERACTIONINFERREDINTERACTION - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFInteractionInteractionType - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInteractionInteractionType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInteractionInteractionType() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
MIFInteractionInteractionType(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
MIFInteractionInteractionType(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
MIFINTERACTIONINTERACTIONTYPE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFInteractionParticipant - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInteractionParticipant entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInteractionParticipant() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
MIFInteractionParticipant(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
MIFInteractionParticipant(Long, long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
MIFINTERACTIONPARTICIPANT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFInteractionParticipantJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFInteractionParticipant Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFInteractionParticipantJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFInteractionParticipantJpaController
 
MIFInteractorInteractorType - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFInteractorInteractorType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFInteractorInteractorType() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
MIFInteractorInteractorType(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
MIFInteractorInteractorType(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
MIFINTERACTORINTERACTORTYPE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherAlias - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherAlias entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherAlias() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
MIFOtherAlias(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
MIFOtherAlias(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
MIFOTHERALIAS - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherAttribute - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherAttribute entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 322 $
MIFOtherAttribute() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
MIFOtherAttribute(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
MIFOtherAttribute(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
MIFOTHERATTRIBUTE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherAvailability - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherAvailability entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherAvailability() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
MIFOtherAvailability(MIFOtherAvailabilityPK) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
MIFOtherAvailability(MIFOtherAvailabilityPK, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
MIFOtherAvailability(long, String) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
MIFOTHERAVAILABILITY - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
mIFOtherAvailabilityPK - Variable in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
MIFOtherAvailabilityPK - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherAvailabilityPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherAvailabilityPK() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
MIFOtherAvailabilityPK(long, String) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
MIFOtherBibRef - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherBibRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherBibRef() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
MIFOtherBibRef(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
MIFOtherBibRef(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
MIFOTHERBIBREF - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherBioSourceType - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherBioSourceType entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherBioSourceType() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
MIFOtherBioSourceType(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
MIFOtherBioSourceType(Long, long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
MIFOTHERBIOSOURCETYPE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherBioSourceTypeJpaController - Class in org.jbiowh.core.datasets.ppi.jpa.controller
This class is the MIFOtherBioSourceTypeJpaController $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MIFOtherBioSourceTypeJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.controller.MIFOtherBioSourceTypeJpaController
 
MIFOtherConfidence - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherConfidence entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherConfidence() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
MIFOtherConfidence(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
MIFOtherConfidence(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
MIFOTHERCONFIDENCE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherExperimentRef - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherExperimentRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherExperimentRef() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
MIFOtherExperimentRef(MIFOtherExperimentRefPK) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
MIFOtherExperimentRef(MIFOtherExperimentRefPK, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
MIFOtherExperimentRef(long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
MIFOTHEREXPERIMENTREF - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
mIFOtherExperimentRefPK - Variable in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
MIFOtherExperimentRefPK - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherExperimentRefPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherExperimentRefPK() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
MIFOtherExperimentRefPK(long, int) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
MIFOtherXRef - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherXRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherXRef() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
MIFOtherXRef(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
MIFOtherXRef(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
MIFOTHERXREF - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherXRefGO - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherXRefGO entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherXRefGO() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
MIFOtherXRefGO(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
MIFOtherXRefGO(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
MIFOTHERXREFGO - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherXRefPubMed - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherXRefPubMed entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherXRefPubMed() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
MIFOtherXRefPubMed(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
MIFOtherXRefPubMed(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
MIFOTHERXREFPUBMED - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherXRefRefSeq - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherXRefRefSeq entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherXRefRefSeq() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
MIFOtherXRefRefSeq(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
MIFOtherXRefRefSeq(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
MIFOTHERXREFREFSEQ - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFOtherXRefUniprot - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFOtherXRefUniprot entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFOtherXRefUniprot() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
MIFOtherXRefUniprot(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
MIFOtherXRefUniprot(Long, long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
MIFOTHERXREFUNIPROT - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantBiologicalRole - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantBiologicalRole entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantBiologicalRole() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
MIFParticipantBiologicalRole(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
MIFParticipantBiologicalRole(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
MIFPARTICIPANTBIOLOGICALROLE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantExperimentalInteractor - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantExperimentalInteractor entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantExperimentalInteractor() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
MIFParticipantExperimentalInteractor(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
MIFParticipantExperimentalInteractor(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
MIFPARTICIPANTEXPERIMENTALINTERACTOR - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantExperimentalPreparation - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantExperimentalPreparation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantExperimentalPreparation() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
MIFParticipantExperimentalPreparation(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
MIFParticipantExperimentalPreparation(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
MIFPARTICIPANTEXPERIMENTALPREPARATION - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantExperimentalRole - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantExperimentalRole entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantExperimentalRole() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
MIFParticipantExperimentalRole(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
MIFParticipantExperimentalRole(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
MIFPARTICIPANTEXPERIMENTALROLE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantFeature - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantFeature entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantFeature() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
MIFParticipantFeature(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
MIFParticipantFeature(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
MIFPARTICIPANTFEATURE - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIFParticipantParameter - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantParameter entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantParameter() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
MIFParticipantParameter(MIFParticipantParameterPK) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
MIFParticipantParameter(long, String) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
MIFPARTICIPANTPARAMETER - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
mIFParticipantParameterPK - Variable in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
MIFParticipantParameterPK - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantParameterPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantParameterPK() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
MIFParticipantParameterPK(long, String) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
MIFParticipantPartIdentMeth - Class in org.jbiowh.core.datasets.ppi.jpa.entities
This Class is the MIFParticipantPartIdentMeth entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MIFParticipantPartIdentMeth() - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
MIFParticipantPartIdentMeth(Long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
MIFParticipantPartIdentMeth(Long, long) - Constructor for class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
MIFPARTICIPANTPARTIDENTMETH - Variable in class org.jbiowh.core.datasets.ppi.parser.MIF25Tables
 
MIM2GENE - Variable in class org.jbiowh.core.datasets.gene.parser.GeneTables
 
mimicObjectToString(Object) - Method in class org.jbiowh.core.logger.VerbLogger
Return the reference for this object
MIXTURE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.MixturesTags
 
MIXTURES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.MixturesTags
 
MixturesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Mixtures XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
MORBIDMAPFILE - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
MorbidMapParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the parser for the OMIM morbidmap file $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
MorbidMapParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.MorbidMapParser
 
MOTIF - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
MultipleFieldXMLParser - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the Three Field XML Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
MultipleFieldXMLParser(String, String[]) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
This constructor initialize the WH file manager and the WH DataSet manager
MySQLSCRIPT - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 

N

NAME - Variable in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
NAME - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
NAME - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.MixturesTags
 
NAME - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PackagersTags
 
NAME - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PFamsTags
 
NAME - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
NAME - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Alt
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
 
name - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
 
NAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
NAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
NAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
NAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
NAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
NAME - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
NAME - Variable in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
NAME - Variable in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
Names - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Names Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Names() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Names
This constructor initialize the WH file manager and the WH DataSet manager
NAMES - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
NAMESFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
NamesTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Names Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
NamesTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.NamesTags
 
NCBICITATIONTEMP - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
NewMain - Class in org.jbiowh.core.utility.graph
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-27 15:25:50 +0100 (Wed, 27 Mar 2013) $ $LastChangedRevision: 515 $
NewMain() - Constructor for class org.jbiowh.core.utility.graph.NewMain
 
NO - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
NODES - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
NODESFILE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
NONE - Variable in class org.jbiowh.core.logger.VerbLogger
This is the error message information level
NonexistentEntityException - Exception in org.jbiowh.core.utility.controller.exceptions
 
NonexistentEntityException(String, Throwable) - Constructor for exception org.jbiowh.core.utility.controller.exceptions.NonexistentEntityException
 
NonexistentEntityException(String) - Constructor for exception org.jbiowh.core.utility.controller.exceptions.NonexistentEntityException
 
NUMBER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
number - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
NUMBER - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 

O

ObjectFactory - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This object contains factory methods for each Java content interface and Java element interface generated in the org.jbiowh.core.datasets.pathway.kegg.kgml.xml package.
ObjectFactory() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.ObjectFactory
Create a new ObjectFactory that can be used to create new instances of schema derived classes for package: org.jbiowh.core.datasets.pathway.kegg.kgml.xml
OMIM - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIM entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIM() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
OMIM(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
OMIM(Long, long, long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
OMIM - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIM_ID - Variable in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
OMIMAV - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMAV entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMAV() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
OMIMAV(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
OMIMAV(Long, long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
OMIMAV - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMAVParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM TX field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIMAVParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMAVParser
 
OMIMBasicParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM basic parser methods $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMBasicParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMBasicParser
 
OMIMCD - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCD entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCD() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
OMIMCD(OMIMCDPK) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
OMIMCD(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
OMIMCD - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMCDParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM CD field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCDParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCDParser
 
oMIMCDPK - Variable in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
OMIMCDPK - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCD PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCDPK() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
OMIMCDPK(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
OMIMCN - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCN entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCN() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
OMIMCN(OMIMCNPK) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
OMIMCN(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
OMIMCN - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMCNParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM CN field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCNParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCNParser
 
oMIMCNPK - Variable in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
OMIMCNPK - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCN PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCNPK() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
OMIMCNPK(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
OMIMCS - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCS entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCS() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
OMIMCS(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
OMIMCS(Long, long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
OMIMCS - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMCSData - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMCSData entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMCSData() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
OMIMCSData(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
OMIMCSData(Long, long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
OMIMCSDATA - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMCSParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM CS field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIMCSParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCSParser
 
OMIMDataSetView - Class in org.jbiowh.gui.datasets.disease
This Class handled the OMIM View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.disease.OMIMDataSetView
Creates new form AbstractDataSetView
OMIMED - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMED entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMED() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
OMIMED(OMIMEDPK) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
OMIMED(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
OMIMED - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMEDParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM ED field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMEDParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMEDParser
 
oMIMEDPK - Variable in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
OMIMEDPK - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMED PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMEDPK() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
OMIMEDPK(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
OMIMFILE - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMFormatException - Exception in org.jbiowh.core.datasets.disease.omim.parser.exception
This Class is the OMIM bad format exception $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMFormatException(String) - Constructor for exception org.jbiowh.core.datasets.disease.omim.parser.exception.OMIMFormatException
 
OMIMGeneMap - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMGeneMap entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMGeneMap() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
OMIMGeneMap(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
OMIMGeneMap(Long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
OMIMGENEMAP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMGENEMAP_HAS_GENESYMBOL - Static variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMGENEMAP_HAS_GENESYMBOLTEMP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMGENEMAP_HAS_OMIMMETHOD - Static variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMGENEMAP_HAS_OMIMMORBIDMAP - Static variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMGENEMAPTEMP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMJpaController - Class in org.jbiowh.core.datasets.disease.omim.jpa.controller
This Class is the OMIM Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OMIMJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.controller.OMIMJpaController
 
OMIMLinks - Class in org.jbiowh.core.datasets.disease.omim.parser.links
This Class create all OMIM external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMListView - Class in org.jbiowh.gui.datasets.disease
This Class show the OMIM list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMListView(Collection<OMIM>, JComponent) - Constructor for class org.jbiowh.gui.datasets.disease.OMIMListView
Create the OMIMListView object
OMIMMethod - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMMethod entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMMethod() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
OMIMMethod(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
OMIMMethod(Long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
OMIMMETHOD - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMMETHODTEMP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMMorbidMap - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMMorbidMap entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMMorbidMap() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
OMIMMorbidMap(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
OMIMMorbidMap(Long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
OMIMMORBIDMAP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMMORBIDMAP_HAS_GENESYMBOL - Static variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMMORBIDMAP_HAS_GENESYMBOLTEMP - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMParser - Class in org.jbiowh.core.datasets.disease.omim.parser
This Class is the OMIM parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OMIMParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.OMIMParser
 
OMIMRF - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMRF entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMRF() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
OMIMRF(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
OMIMRF(Long, long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
OMIMRF - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMRFParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM RF field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIMRFParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMRFParser
 
OMIMSA - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMSA entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMSA() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
OMIMSA(Long) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
OMIMSA(Long, long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
OMIMSA - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMSAParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM SA field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIMSAParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMSAParser
 
OMIMTables - Class in org.jbiowh.core.datasets.disease.omim.parser
This Class is the OMIM tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTabs - Class in org.jbiowh.core.datasets.disease.omim.parser.files.tags
This Class is the OMIM Tabs definition $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTabs() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
OMIMTI - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMTI entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTI() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
OMIMTI(OMIMTIPK) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
OMIMTI(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
OMIMTI - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMTIParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM TI field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTIParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTIParser
 
oMIMTIPK - Variable in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
OMIMTIPK - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMTI PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTIPK() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
OMIMTIPK(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
OMIMTransfer - Class in org.jbiowh.core.datasets.disease.omim.jpa.transfer
This class handled the OMIM transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OMIMTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.transfer.OMIMTransfer
Create the OMIM transfer
OMIMTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.transfer.OMIMTransfer
Create the OMIM transfer
OMIMTX - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMTX entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTX() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
OMIMTX(OMIMTXPK) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
OMIMTX(OMIMTXPK, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
OMIMTX(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
OMIMTX - Variable in class org.jbiowh.core.datasets.disease.omim.parser.OMIMTables
 
OMIMTXParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the OMIM TX field parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTXParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTXParser
 
oMIMTXPK - Variable in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
OMIMTXPK - Class in org.jbiowh.core.datasets.disease.omim.jpa.entities
This Class is the OMIMTX PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OMIMTXPK() - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
OMIMTXPK(long, String) - Constructor for class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
OMIMTXTParser - Class in org.jbiowh.core.datasets.disease.omim.parser.files
This Class is the parser for the OMIM omim file $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OMIMTXTParser() - Constructor for class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTXTParser
 
Ontology - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the Ontology Entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Ontology() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
Ontology(Long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
Ontology(Long, String, String, String, boolean, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
ONTOLOGY - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGY_HAS_ONTOLOGYSUBSET - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGY_HAS_ONTOLOGYSYNONYM - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGY_HAS_ONTOLOGYXREF - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
OntologyAlternativeId - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is OntologyAlternativeId entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyAlternativeId() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
OntologyAlternativeId(OntologyAlternativeIdPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
OntologyAlternativeId(long, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
ONTOLOGYALTERNATIVEID - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ontologyAlternativeIdPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
OntologyAlternativeIdPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyAlternativeIdPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyAlternativeIdPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
OntologyAlternativeIdPK(long, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
OntologyDataSetView - Class in org.jbiowh.gui.datasets.ontology
This Class handled the Ontology View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.ontology.OntologyDataSetView
Creates new form AbstractDataSetView
OntologyhasOntologySynonym - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This class is the Ontology_has_OntologySynonym entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyhasOntologySynonym() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
OntologyhasOntologySynonym(OntologyhasOntologySynonymPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
OntologyhasOntologySynonym(long, long, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
ontologyhasOntologySynonymPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
OntologyhasOntologySynonymPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-26 16:29:19 +0100 (Mon, 26 Nov 2012) $ $LastChangedRevision: 323 $
OntologyhasOntologySynonymPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
OntologyhasOntologySynonymPK(long, long, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
OntologyIsA - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is OntologyIsA entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyIsA() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
OntologyIsA(OntologyIsAPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
OntologyIsA(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
ONTOLOGYISA - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ontologyIsAPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
OntologyIsAPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyIsAPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyIsAPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
OntologyIsAPK(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
OntologyJpaController - Class in org.jbiowh.core.datasets.ontology.jpa.controller
This class is the Ontology Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OntologyJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.controller.OntologyJpaController
 
OntologyLinks - Class in org.jbiowh.core.datasets.ontology.parser.links
This Class create all Ontology external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-26 16:29:19 +0100 (Mon, 26 Nov 2012) $ $LastChangedRevision: 323 $
OntologyListView - Class in org.jbiowh.gui.datasets.ontology
This Class is show the Ontology list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyListView(Collection<Ontology>, JComponent) - Constructor for class org.jbiowh.gui.datasets.ontology.OntologyListView
Create the Ontology List object
OntologyParser - Class in org.jbiowh.core.datasets.ontology.parser
This Class is the Ontology parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OntologyParser() - Constructor for class org.jbiowh.core.datasets.ontology.parser.OntologyParser
 
OntologyPMID - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyPMID entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyPMID() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
OntologyPMID(OntologyPMIDPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
OntologyPMID(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
ONTOLOGYPMID - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ontologyPMIDPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
OntologyPMIDPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyPMIDPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyPMIDPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
OntologyPMIDPK(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
OntologyRelation - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyRelation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyRelation() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
OntologyRelation(OntologyRelationPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
OntologyRelation(OntologyRelationPK, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
OntologyRelation(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
ONTOLOGYRELATION - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ontologyRelationPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
OntologyRelationPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyRelationPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyRelationPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
OntologyRelationPK(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
OntologySubset - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologySubset entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologySubset() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
OntologySubset(Long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
OntologySubset(Long, String, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
ONTOLOGYSUBSET - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
OntologySynonym - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologySynonym entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologySynonym() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
OntologySynonym(Long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
OntologySynonym(Long, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
ONTOLOGYSYNONYM - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
OntologySynonymJpaController - Class in org.jbiowh.core.datasets.ontology.jpa.controller
This class is the OntologySynonym Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OntologySynonymJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.controller.OntologySynonymJpaController
 
OntologyTables - Class in org.jbiowh.core.datasets.ontology.parser
This Class is the Ontology Table list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyToConsider - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyToConsider entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyToConsider() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
OntologyToConsider(OntologyToConsiderPK) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
OntologyToConsider(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
ONTOLOGYTOCONSIDER - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ontologyToConsiderPK - Variable in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
OntologyToConsiderPK - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyToConsiderPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyToConsiderPK() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
OntologyToConsiderPK(long, long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
OntologyTransfer - Class in org.jbiowh.core.datasets.ontology.jpa.transfer
This class handled the Ontology transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
OntologyTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.transfer.OntologyTransfer
Create the Ontology transfer
OntologyTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.transfer.OntologyTransfer
Create the Ontology transfer
ONTOLOGYWIDISATEMP - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGYWIDONTOLOGYSUBSET - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGYWIDRELATIONTEMP - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGYWIDSYNONYMTEMP - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGYWIDTOCONSIDERTEMP - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
ONTOLOGYWIDXREFTEMP - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
OntologyXRef - Class in org.jbiowh.core.datasets.ontology.jpa.entities
This Class is the OntologyXRef entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OntologyXRef() - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
OntologyXRef(Long) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
OntologyXRef(Long, String, String, String) - Constructor for class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
ONTOLOGYXREF - Variable in class org.jbiowh.core.datasets.ontology.parser.OntologyTables
 
OpenActionListener - Class in org.jbiowh.gui.actions.jbiowh
This class is the open action for the main window $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
OpenActionListener(JBioWH, boolean) - Constructor for class org.jbiowh.gui.actions.jbiowh.OpenActionListener
Create the open action for the main window
OpenActionListener(JBioWH, boolean, boolean) - Constructor for class org.jbiowh.gui.actions.jbiowh.OpenActionListener
Create the open action for the main window
openConnection(boolean) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Open the connection using internal data
openConnection(boolean) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Open the connection using internal data
openConnection(boolean, boolean, boolean) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Create the WHDBMS factory and open the connection with the DBMS
OpenCvType - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML OpenCvType Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
OpenCvType(String) - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
This constructor initialize the WH file manager and the WH DataSet manager
openSchema(WHDBMSFactory, boolean, boolean, boolean) - Method in class org.jbiowh.core.dbms.WHDBMS
Open the schema provided by the WHDBMSFactory
openSQLFile(File) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Open the file f on the SQL Editor
openSQLFile(BufferedReader) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Open the BufferedReader reader on the SQL Editor
OpenWHDB - Class in org.jbiowh.gui
This JDialog is to Open WHDB $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 396 $
OpenWHDB(Frame, boolean, boolean) - Constructor for class org.jbiowh.gui.OpenWHDB
Creates new form OpenWHDB
OpenWHDB(Frame, boolean, boolean, boolean) - Constructor for class org.jbiowh.gui.OpenWHDB
Creates new form OpenWHDB
orderByPFrom() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Order the genes by its position on the chromosome
org - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
org.jbiowh.core.datasets.disease.omim.jpa.controller - package org.jbiowh.core.datasets.disease.omim.jpa.controller
 
org.jbiowh.core.datasets.disease.omim.jpa.entities - package org.jbiowh.core.datasets.disease.omim.jpa.entities
 
org.jbiowh.core.datasets.disease.omim.jpa.transfer - package org.jbiowh.core.datasets.disease.omim.jpa.transfer
 
org.jbiowh.core.datasets.disease.omim.parser - package org.jbiowh.core.datasets.disease.omim.parser
 
org.jbiowh.core.datasets.disease.omim.parser.exception - package org.jbiowh.core.datasets.disease.omim.parser.exception
 
org.jbiowh.core.datasets.disease.omim.parser.files - package org.jbiowh.core.datasets.disease.omim.parser.files
 
org.jbiowh.core.datasets.disease.omim.parser.files.tags - package org.jbiowh.core.datasets.disease.omim.parser.files.tags
 
org.jbiowh.core.datasets.disease.omim.parser.links - package org.jbiowh.core.datasets.disease.omim.parser.links
 
org.jbiowh.core.datasets.disease.omim.search - package org.jbiowh.core.datasets.disease.omim.search
 
org.jbiowh.core.datasets.domain.pfam.jpa.controller - package org.jbiowh.core.datasets.domain.pfam.jpa.controller
 
org.jbiowh.core.datasets.domain.pfam.jpa.entities - package org.jbiowh.core.datasets.domain.pfam.jpa.entities
 
org.jbiowh.core.datasets.domain.pfam.jpa.transfer - package org.jbiowh.core.datasets.domain.pfam.jpa.transfer
 
org.jbiowh.core.datasets.domain.pfam.parser - package org.jbiowh.core.datasets.domain.pfam.parser
 
org.jbiowh.core.datasets.domain.pfam.parser.files - package org.jbiowh.core.datasets.domain.pfam.parser.files
 
org.jbiowh.core.datasets.domain.pfam.parser.links - package org.jbiowh.core.datasets.domain.pfam.parser.links
 
org.jbiowh.core.datasets.domain.pfam.search - package org.jbiowh.core.datasets.domain.pfam.search
 
org.jbiowh.core.datasets.drug.drugbank.jpa.controller - package org.jbiowh.core.datasets.drug.drugbank.jpa.controller
 
org.jbiowh.core.datasets.drug.drugbank.jpa.entities - package org.jbiowh.core.datasets.drug.drugbank.jpa.entities
 
org.jbiowh.core.datasets.drug.drugbank.jpa.transfer - package org.jbiowh.core.datasets.drug.drugbank.jpa.transfer
 
org.jbiowh.core.datasets.drug.drugbank.parser - package org.jbiowh.core.datasets.drug.drugbank.parser
 
org.jbiowh.core.datasets.drug.drugbank.parser.links - package org.jbiowh.core.datasets.drug.drugbank.parser.links
 
org.jbiowh.core.datasets.drug.drugbank.parser.utility - package org.jbiowh.core.datasets.drug.drugbank.parser.utility
 
org.jbiowh.core.datasets.drug.drugbank.parser.xml - package org.jbiowh.core.datasets.drug.drugbank.parser.xml
 
org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags - package org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
 
org.jbiowh.core.datasets.drug.drugbank.search - package org.jbiowh.core.datasets.drug.drugbank.search
 
org.jbiowh.core.datasets.gene.jpa.controller - package org.jbiowh.core.datasets.gene.jpa.controller
 
org.jbiowh.core.datasets.gene.jpa.entities.gene - package org.jbiowh.core.datasets.gene.jpa.entities.gene
 
org.jbiowh.core.datasets.gene.jpa.entities.geneptt - package org.jbiowh.core.datasets.gene.jpa.entities.geneptt
 
org.jbiowh.core.datasets.gene.jpa.transfer - package org.jbiowh.core.datasets.gene.jpa.transfer
 
org.jbiowh.core.datasets.gene.parser - package org.jbiowh.core.datasets.gene.parser
 
org.jbiowh.core.datasets.gene.parser.files - package org.jbiowh.core.datasets.gene.parser.files
 
org.jbiowh.core.datasets.gene.parser.links - package org.jbiowh.core.datasets.gene.parser.links
 
org.jbiowh.core.datasets.gene.search - package org.jbiowh.core.datasets.gene.search
 
org.jbiowh.core.datasets.gene.utils - package org.jbiowh.core.datasets.gene.utils
 
org.jbiowh.core.datasets.mainloader - package org.jbiowh.core.datasets.mainloader
 
org.jbiowh.core.datasets.mainloader.controller - package org.jbiowh.core.datasets.mainloader.controller
 
org.jbiowh.core.datasets.mainloader.entities - package org.jbiowh.core.datasets.mainloader.entities
 
org.jbiowh.core.datasets.ontology.jpa.controller - package org.jbiowh.core.datasets.ontology.jpa.controller
 
org.jbiowh.core.datasets.ontology.jpa.entities - package org.jbiowh.core.datasets.ontology.jpa.entities
 
org.jbiowh.core.datasets.ontology.jpa.transfer - package org.jbiowh.core.datasets.ontology.jpa.transfer
 
org.jbiowh.core.datasets.ontology.parser - package org.jbiowh.core.datasets.ontology.parser
 
org.jbiowh.core.datasets.ontology.parser.links - package org.jbiowh.core.datasets.ontology.parser.links
 
org.jbiowh.core.datasets.ontology.parser.xml - package org.jbiowh.core.datasets.ontology.parser.xml
 
org.jbiowh.core.datasets.ontology.parser.xml.tags - package org.jbiowh.core.datasets.ontology.parser.xml.tags
 
org.jbiowh.core.datasets.ontology.search - package org.jbiowh.core.datasets.ontology.search
 
org.jbiowh.core.datasets.pathway.kegg.jpa.controller - package org.jbiowh.core.datasets.pathway.kegg.jpa.controller
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway
 
org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction - package org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction
 
org.jbiowh.core.datasets.pathway.kegg.jpa.transfer - package org.jbiowh.core.datasets.pathway.kegg.jpa.transfer
 
org.jbiowh.core.datasets.pathway.kegg.parser - package org.jbiowh.core.datasets.pathway.kegg.parser
 
org.jbiowh.core.datasets.pathway.kegg.parser.gene - package org.jbiowh.core.datasets.pathway.kegg.parser.gene
 
org.jbiowh.core.datasets.pathway.kegg.parser.kgml - package org.jbiowh.core.datasets.pathway.kegg.parser.kgml
 
org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml - package org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
 
org.jbiowh.core.datasets.pathway.kegg.parser.ligand - package org.jbiowh.core.datasets.pathway.kegg.parser.ligand
 
org.jbiowh.core.datasets.pathway.kegg.parser.links - package org.jbiowh.core.datasets.pathway.kegg.parser.links
 
org.jbiowh.core.datasets.pathway.kegg.parser.utility - package org.jbiowh.core.datasets.pathway.kegg.parser.utility
 
org.jbiowh.core.datasets.pathway.kegg.search - package org.jbiowh.core.datasets.pathway.kegg.search
 
org.jbiowh.core.datasets.ppi.jpa.controller - package org.jbiowh.core.datasets.ppi.jpa.controller
 
org.jbiowh.core.datasets.ppi.jpa.entities - package org.jbiowh.core.datasets.ppi.jpa.entities
 
org.jbiowh.core.datasets.ppi.jpa.transfer - package org.jbiowh.core.datasets.ppi.jpa.transfer
 
org.jbiowh.core.datasets.ppi.parser - package org.jbiowh.core.datasets.ppi.parser
 
org.jbiowh.core.datasets.ppi.parser.links - package org.jbiowh.core.datasets.ppi.parser.links
 
org.jbiowh.core.datasets.ppi.parser.xml - package org.jbiowh.core.datasets.ppi.parser.xml
 
org.jbiowh.core.datasets.ppi.parser.xml.tags - package org.jbiowh.core.datasets.ppi.parser.xml.tags
 
org.jbiowh.core.datasets.protclust.jpa.controller - package org.jbiowh.core.datasets.protclust.jpa.controller
 
org.jbiowh.core.datasets.protclust.jpa.entities - package org.jbiowh.core.datasets.protclust.jpa.entities
 
org.jbiowh.core.datasets.protclust.jpa.transfer - package org.jbiowh.core.datasets.protclust.jpa.transfer
 
org.jbiowh.core.datasets.protclust.parser - package org.jbiowh.core.datasets.protclust.parser
 
org.jbiowh.core.datasets.protclust.parser.links - package org.jbiowh.core.datasets.protclust.parser.links
 
org.jbiowh.core.datasets.protclust.parser.xml - package org.jbiowh.core.datasets.protclust.parser.xml
 
org.jbiowh.core.datasets.protclust.parser.xml.tags - package org.jbiowh.core.datasets.protclust.parser.xml.tags
 
org.jbiowh.core.datasets.protclust.search - package org.jbiowh.core.datasets.protclust.search
 
org.jbiowh.core.datasets.protein.jpa.controller - package org.jbiowh.core.datasets.protein.jpa.controller
 
org.jbiowh.core.datasets.protein.jpa.entities - package org.jbiowh.core.datasets.protein.jpa.entities
 
org.jbiowh.core.datasets.protein.jpa.transfer - package org.jbiowh.core.datasets.protein.jpa.transfer
 
org.jbiowh.core.datasets.protein.parser - package org.jbiowh.core.datasets.protein.parser
 
org.jbiowh.core.datasets.protein.parser.links - package org.jbiowh.core.datasets.protein.parser.links
 
org.jbiowh.core.datasets.protein.parser.xml - package org.jbiowh.core.datasets.protein.parser.xml
 
org.jbiowh.core.datasets.protein.parser.xml.tags - package org.jbiowh.core.datasets.protein.parser.xml.tags
 
org.jbiowh.core.datasets.protein.search - package org.jbiowh.core.datasets.protein.search
 
org.jbiowh.core.datasets.protein.utils - package org.jbiowh.core.datasets.protein.utils
 
org.jbiowh.core.datasets.taxonomy.jpa.controller - package org.jbiowh.core.datasets.taxonomy.jpa.controller
 
org.jbiowh.core.datasets.taxonomy.jpa.entities - package org.jbiowh.core.datasets.taxonomy.jpa.entities
 
org.jbiowh.core.datasets.taxonomy.jpa.transfer - package org.jbiowh.core.datasets.taxonomy.jpa.transfer
 
org.jbiowh.core.datasets.taxonomy.parser - package org.jbiowh.core.datasets.taxonomy.parser
 
org.jbiowh.core.datasets.taxonomy.parser.links - package org.jbiowh.core.datasets.taxonomy.parser.links
 
org.jbiowh.core.datasets.taxonomy.search - package org.jbiowh.core.datasets.taxonomy.search
 
org.jbiowh.core.datasets.taxonomy.utils - package org.jbiowh.core.datasets.taxonomy.utils
 
org.jbiowh.core.dbms - package org.jbiowh.core.dbms
 
org.jbiowh.core.dbms.mysql - package org.jbiowh.core.dbms.mysql
 
org.jbiowh.core.dbms.sql - package org.jbiowh.core.dbms.sql
 
org.jbiowh.core.dbms.sql.exception - package org.jbiowh.core.dbms.sql.exception
 
org.jbiowh.core.dbms.transfer - package org.jbiowh.core.dbms.transfer
 
org.jbiowh.core.logger - package org.jbiowh.core.logger
 
org.jbiowh.core.utility.constrains - package org.jbiowh.core.utility.constrains
 
org.jbiowh.core.utility.controller - package org.jbiowh.core.utility.controller
 
org.jbiowh.core.utility.controller.exceptions - package org.jbiowh.core.utility.controller.exceptions
 
org.jbiowh.core.utility.graph - package org.jbiowh.core.utility.graph
 
org.jbiowh.core.utility.jparelationship - package org.jbiowh.core.utility.jparelationship
 
org.jbiowh.core.utility.jparelationship.graph - package org.jbiowh.core.utility.jparelationship.graph
 
org.jbiowh.core.utility.utils - package org.jbiowh.core.utility.utils
 
org.jbiowh.gui - package org.jbiowh.gui
 
org.jbiowh.gui.actions.jbiowh - package org.jbiowh.gui.actions.jbiowh
 
org.jbiowh.gui.actions.tabbedpanel - package org.jbiowh.gui.actions.tabbedpanel
 
org.jbiowh.gui.component.dialog.progress - package org.jbiowh.gui.component.dialog.progress
 
org.jbiowh.gui.component.file - package org.jbiowh.gui.component.file
 
org.jbiowh.gui.component.graph - package org.jbiowh.gui.component.graph
 
org.jbiowh.gui.component.icons - package org.jbiowh.gui.component.icons
 
org.jbiowh.gui.component.panel - package org.jbiowh.gui.component.panel
 
org.jbiowh.gui.component.panel.list - package org.jbiowh.gui.component.panel.list
 
org.jbiowh.gui.component.panel.result - package org.jbiowh.gui.component.panel.result
 
org.jbiowh.gui.component.panel.sql - package org.jbiowh.gui.component.panel.sql
 
org.jbiowh.gui.component.panel.sql.syntax - package org.jbiowh.gui.component.panel.sql.syntax
 
org.jbiowh.gui.component.panel.tabbedpanel - package org.jbiowh.gui.component.panel.tabbedpanel
 
org.jbiowh.gui.component.popup - package org.jbiowh.gui.component.popup
 
org.jbiowh.gui.component.table.model - package org.jbiowh.gui.component.table.model
 
org.jbiowh.gui.component.table.model.data - package org.jbiowh.gui.component.table.model.data
 
org.jbiowh.gui.component.tree - package org.jbiowh.gui.component.tree
 
org.jbiowh.gui.datasets - package org.jbiowh.gui.datasets
 
org.jbiowh.gui.datasets.disease - package org.jbiowh.gui.datasets.disease
 
org.jbiowh.gui.datasets.domain.pfam - package org.jbiowh.gui.datasets.domain.pfam
 
org.jbiowh.gui.datasets.drug - package org.jbiowh.gui.datasets.drug
 
org.jbiowh.gui.datasets.gene - package org.jbiowh.gui.datasets.gene
 
org.jbiowh.gui.datasets.ontology - package org.jbiowh.gui.datasets.ontology
 
org.jbiowh.gui.datasets.pathway - package org.jbiowh.gui.datasets.pathway
 
org.jbiowh.gui.datasets.pathway.compound - package org.jbiowh.gui.datasets.pathway.compound
 
org.jbiowh.gui.datasets.pathway.enzyme - package org.jbiowh.gui.datasets.pathway.enzyme
 
org.jbiowh.gui.datasets.pathway.gene - package org.jbiowh.gui.datasets.pathway.gene
 
org.jbiowh.gui.datasets.pathway.glycan - package org.jbiowh.gui.datasets.pathway.glycan
 
org.jbiowh.gui.datasets.pathway.reaction - package org.jbiowh.gui.datasets.pathway.reaction
 
org.jbiowh.gui.datasets.protein - package org.jbiowh.gui.datasets.protein
 
org.jbiowh.gui.datasets.protfam - package org.jbiowh.gui.datasets.protfam
 
org.jbiowh.gui.datasets.taxonomy - package org.jbiowh.gui.datasets.taxonomy
 
org.jbiowh.gui.save - package org.jbiowh.gui.save
 
org.jbiowh.gui.sqltables - package org.jbiowh.gui.sqltables
 
org.jbiowh.gui.sqltables.exception - package org.jbiowh.gui.sqltables.exception
 
org.jbiowh.gui.sqltables.listener - package org.jbiowh.gui.sqltables.listener
 
org.jbiowh.tools.dataset - package org.jbiowh.tools.dataset
 
org.jbiowh.tools.defaultTools - package org.jbiowh.tools.defaultTools
 
org.jbiowh.tools.examples - package org.jbiowh.tools.examples
 
org.jbiowh.tools.gene - package org.jbiowh.tools.gene
 
org.jbiowh.tools.protein - package org.jbiowh.tools.protein
 
org.jbiowh.tools.prototypes.insert - package org.jbiowh.tools.prototypes.insert
 
org.jbiowh.tools.prototypes.temp - package org.jbiowh.tools.prototypes.temp
 
org.jbiowh.tools.taxonomy - package org.jbiowh.tools.taxonomy
 
Organism - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Organism tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Organism() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Organism
This constructor initialize the WH file manager and the WH DataSet manager
OrganismTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Organism tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
OrganismTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.OrganismTags
 
ORTHOLOGY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
ORTHOLOGYENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
ORTHOLOGYENTRY - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
ORTHOLOGYNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
ORTHOLOGYNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 

P

PACKAGER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PackagersTags
 
PACKAGERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PackagersTags
 
PackagersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Packagers XML tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Parameter - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Parameter Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Parameter() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
This constructor initialize the WH file manager and the WH DataSet manager
ParameterList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML ParameterList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParameterList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
This constructor initialize the WH file manager and the WH DataSet manager
ParameterListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ParameterList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParameterListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterListTags
 
ParameterTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Parameter Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParameterTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParameterTags
 
parentComponent - Variable in class org.jbiowh.gui.component.panel.AbstractDataSetView
The parent JComponent
parentComponent - Variable in class org.jbiowh.gui.component.panel.list.AbstractListView
 
parentComponent - Variable in class org.jbiowh.gui.component.popup.BasicPopup
The parent component for this popup
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMAVParser
Get the OMIMAV object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCDParser
Get the OMIMCD object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCNParser
Get the OMIMCN object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMCSParser
Get the OMIMCS object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMEDParser
Get the OMIMED object parsing the OMIM txt file
parse(BufferedReader, Long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMRFParser
Get the OMIMRF object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMSAParser
Get the OMIMSA object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTIParser
Get the OMIMTI object parsing the OMIM txt file
parse(BufferedReader, long) - Method in class org.jbiowh.core.datasets.disease.omim.parser.files.OMIMTXParser
Get the OMIMTX object parsing the OMIM txt file
parseDefaultOptions(OptionParser, String[], boolean) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Method to parse the command line arguments
ParseFactory - Interface in org.jbiowh.core.datasets.mainloader
This interface is the Parse Factory to parse any data source $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParseFiles - Class in org.jbiowh.core.utility.utils
This Class is handled the TSV files to parse data sources $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
parseOption(OptionSet, String, Object, boolean, boolean) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Parse the command line option
parseOptions(String[]) - Method in class org.jbiowh.core.datasets.mainloader.DataSetLoader
 
parseOptions(String[]) - Method in class org.jbiowh.tools.dataset.DataSetReport
 
parseOptions(String[]) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
This method parse the command line arguments with the JBioWH options
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighbors
Method to parse the command line arguments
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighborTax
Method to parse the command line arguments
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.DrugPathwayGraph
 
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.FindALLHumProt
 
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.FindALLHumProtinGO
 
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.FindALLHumProtinGOwithConst
 
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.FindGenefromDrug
 
parseOptions(String[]) - Method in class org.jbiowh.tools.examples.FrecPathGeneNeighbors
Method to parse the command line arguments
parseOptions(String[]) - Method in class org.jbiowh.tools.gene.FindGenefromProteinGi
 
parseOptions(String[]) - Method in class org.jbiowh.tools.gene.GenesDrugsFromTaxonomyFamily
 
parseOptions(String[]) - Method in class org.jbiowh.tools.protein.FindProtein
 
parseOptions(String[]) - Method in class org.jbiowh.tools.protein.FindProteinFromTaxonomy
 
parseOptions(String[]) - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
 
parseOptions(String[]) - Method in class org.jbiowh.tools.prototypes.temp.Test
 
parseOptions(String[]) - Method in class org.jbiowh.tools.taxonomy.FindTaxonomyGraph
 
Participant - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Participant Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Participant() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Participant
This constructor initialize the WH file manager and the WH DataSet manager
ParticipantList - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParticipantList() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
This constructor initialize the WH file manager and the WH DataSet manager
ParticipantListTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML ParticipantList Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParticipantListTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantListTags
 
ParticipantTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Participant Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ParticipantTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.ParticipantTags
 
Partner - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the Partner XML parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Partner() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
This constructor initialize the WH file manager and the WH DataSet manager
PARTNER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
 
PARTNER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PartnerTags
 
PartnerTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Partner XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
PartnerTags() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PartnerTags
 
PATENT - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
PATENTS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PatentsTags
 
PatentsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Patents XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Pathway - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Pathway XML parser from JAXB for KGML file format
Pathway() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
PATHWAY - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
PathwayPrintOnTSVFile - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml
This class is print on the TSV file forma to be inserted on the DBMS $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
PFAM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PFamsTags
 
PFAMA_HAS_ONTOLOGY - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMA_HAS_PFAMARCHITECTURE - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMA_HAS_PFAMLITERATUREREFERENCES - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMA_HAS_TAXONOMY - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMA_NCBI - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMA_ORIG - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamAbioWH - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamAbioWH entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamAbioWH() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
PfamAbioWH(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
PfamAbioWH(Long, String, String, String, String, String, String, String, double, double, double, double, double, double, String, int, String, double, double, double, double, double, double, Date, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
PFAMABIOWH - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamAbioWHJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamAbioWH Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamAbioWHJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamAbioWHJpaController
 
PfamADatabaseLinks - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamADatabaseLinks entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamADatabaseLinks() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
PfamADatabaseLinks(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
PfamADatabaseLinks(Long, long, String, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
PFAMADATABASELINKS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamAhasPfamLiteratureReferences - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamA_has_PfamLiteratureReferences entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamAhasPfamLiteratureReferences() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
PfamAhasPfamLiteratureReferences(PfamAhasPfamLiteratureReferencesPK) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
PfamAhasPfamLiteratureReferences(long, long, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
pfamAhasPfamLiteratureReferencesPK - Variable in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
PfamAhasPfamLiteratureReferencesPK - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamAhasPfamLiteratureReferences PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamAhasPfamLiteratureReferencesPK() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
PfamAhasPfamLiteratureReferencesPK(long, long, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
PFAMAINTERACTIONS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamANCBIReg - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamANCBIReg entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamANCBIReg() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
PfamANCBIReg(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
PfamANCBIReg(Long, long, long, int, int, int, int, int, int, double, String, double, String, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
PFAMANCBIREG - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamAPDBReg - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamAPDBReg entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamAPDBReg() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
PfamAPDBReg(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
PfamAPDBReg(Long, long, int, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
PFAMAPDBREG - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamArchitecture - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamArchitecture entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamArchitecture() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
PfamArchitecture(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
PfamArchitecture(Long, int, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
PFAMARCHITECTURE - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamArchitectureJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamArchitecture Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamArchitectureJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamArchitectureJpaController
 
PfamARegFullInsignificant - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamARegFullInsignificant entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamARegFullInsignificant() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
PfamARegFullInsignificant(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
PfamARegFullInsignificant(Long, long, long, long, int, int, int, int, double, String, double, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
PFAMAREGFULLINSIGNIFICANT - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamARegFullInsignificantJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamARegFullInsignificant Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamARegFullInsignificantJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullInsignificantJpaController
 
PfamARegFullSignificant - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamARegFullSignificant entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamARegFullSignificant() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
PfamARegFullSignificant(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
PfamARegFullSignificant(Long, long, long, long, int, int, int, int, int, int, double, String, double, String, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
PFAMAREGFULLSIGNIFICANT - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamARegFullSignificantJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamARegFullSignificant Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamARegFullSignificantJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamARegFullSignificantJpaController
 
PFAMAREGFULLSIGNIFICANTTEMP - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamARegSeed - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamARegSeed entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamARegSeed() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
PfamARegSeed(PfamARegSeedPK) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
PfamARegSeed(PfamARegSeedPK, int, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
PfamARegSeed(long, long, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
PFAMAREGSEED - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
pfamARegSeedPK - Variable in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
PfamARegSeedPK - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamARegSeed PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamARegSeedPK() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
PfamARegSeedPK(long, long, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
PFamATransfer - Class in org.jbiowh.core.datasets.domain.pfam.jpa.transfer
This class handled the PFAM transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PFamATransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.transfer.PFamATransfer
Create the PFamA transfer
PFamATransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.transfer.PFamATransfer
Create the PFamA transfer
PfamBbioWH - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamBbioWH entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamBbioWH() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
PfamBbioWH(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
PFAMBBIOWH - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamBbioWHJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This Class is the PfamBbioWH Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamBbioWHJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamBbioWHJpaController
 
PfamBReg - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamBReg entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamBReg() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
PfamBReg(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
PfamBReg(Long, long, long, int, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
PFAMBREG - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamClanDatabaseLinks - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamClanDatabaseLinks entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamClanDatabaseLinks() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
PfamClanDatabaseLinks(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
PfamClanDatabaseLinks(Long, long, String, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
PFAMCLANDATABASELINKS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamClans - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is PfamClans entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamClans() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
PfamClans(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
PfamClans(Long, String, String, String, Date) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
PFAMCLANS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMCLANS_HAS_PFAMA - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMCLANS_HAS_PFAMARCHITECTURE - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMCLANS_HAS_PFAMLITERATUREREFERENCES - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamClanshasPfamLiteratureReferences - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamClans_has_PfamLiteratureReferences entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamClanshasPfamLiteratureReferences() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
PfamClanshasPfamLiteratureReferences(PfamClanshasPfamLiteratureReferencesPK) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
PfamClanshasPfamLiteratureReferences(long, long, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
pfamClanshasPfamLiteratureReferencesPK - Variable in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
PfamClanshasPfamLiteratureReferencesPK - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamClanshasPfamLiteratureReferences PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamClanshasPfamLiteratureReferencesPK() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
PfamClanshasPfamLiteratureReferencesPK(long, long, short) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
PfamClansJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamClans Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamClansJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamClansJpaController
 
PfamCompleteProteomes - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamCompleteProteomes entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamCompleteProteomes() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
PfamCompleteProteomes(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
PfamCompleteProteomes(Long, int, int, int, int, int, int, long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
PFAMCOMPLETEPROTEOMES - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMCOMPLETEPROTEOMES_HAS_PFAMSEQ - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamCompleteProteomesJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamCompleteProteomes Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamCompleteProteomesJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamCompleteProteomesJpaController
 
PfamContextRegions - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamContextRegions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamContextRegions() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
PfamContextRegions(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
PfamContextRegions(Long, long, long, int, int, double) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
PFAMCONTEXTREGIONS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFamDataSetView - Class in org.jbiowh.gui.datasets.domain.pfam
This class handled the PFam View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-04 11:38:52 +0100 (Tue, 04 Dec 2012) $ $LastChangedRevision: 377 $
PFamDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.domain.pfam.PFamDataSetView
Creates new form AbstractDataSetView
PfamInterpro - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamInterpro entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamInterpro() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
PfamInterpro(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
PfamInterpro(Long, String, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
PFAMINTERPRO - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFamLinks - Class in org.jbiowh.core.datasets.domain.pfam.parser.links
This Class is the PFAM external links $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PFamListView - Class in org.jbiowh.gui.datasets.domain.pfam
This class shows the Pfam List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PFamListView(Collection<PfamAbioWH>, JComponent) - Constructor for class org.jbiowh.gui.datasets.domain.pfam.PFamListView
Create the Pfam List object
PfamLiteratureReferences - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamLiteratureReferences entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamLiteratureReferences() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
PfamLiteratureReferences(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
PFAMLITERATUREREFERENCES - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamLiteratureReferencesJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamLiteratureReferences Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamLiteratureReferencesJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamLiteratureReferencesJpaController
 
PFAMMARKUP_HAS_PROTEIN - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamMarkupKey - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamMarkupKey entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamMarkupKey() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
PfamMarkupKey(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
PFAMMARKUPKEY - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamNestedLocations - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamNestedLocations entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamNestedLocations() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
PfamNestedLocations(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
PfamNestedLocations(Long, long, long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
PFAMNESTEDLOCATIONS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFamOntologyLink - Class in org.jbiowh.core.datasets.domain.pfam.parser.links
This Class is the PFAM-Ontology external links $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamOtherReg - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamOtherReg entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamOtherReg() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
PfamOtherReg(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
PfamOtherReg(Long, long, int, int, String, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
PFAMOTHERREG - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFamParser - Class in org.jbiowh.core.datasets.domain.pfam.parser
This class is the Pfam Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PFamParser() - Constructor for class org.jbiowh.core.datasets.domain.pfam.parser.PFamParser
 
PfamPDB - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamPDB entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamPDB() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
PfamPDB(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
PfamPDB(Long, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
PFAMPDB - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamPDBResidueData - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamPDBResidueData entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamPDBResidueData() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
PfamPDBResidueData(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
PfamPDBResidueData(Long, long, long, String, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
PFAMPDBRESIDUEDATA - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFamProteinLink - Class in org.jbiowh.core.datasets.domain.pfam.parser.links
This Class is the PFam-Protein external link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamProteomeRegions - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamProteomeRegions entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PfamProteomeRegions() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
PfamProteomeRegions(PfamProteomeRegionsPK) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
PfamProteomeRegions(PfamProteomeRegionsPK, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
PfamProteomeRegions(long, long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
PFAMPROTEOMEREGIONS - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamProteomeRegionsJpaController - Class in org.jbiowh.core.datasets.domain.pfam.jpa.controller
This class is the PfamProteomeRegions Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PfamProteomeRegionsJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.controller.PfamProteomeRegionsJpaController
 
pfamProteomeRegionsPK - Variable in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
PfamProteomeRegionsPK - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamProteomeRegions PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamProteomeRegionsPK() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
PfamProteomeRegionsPK(long, long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
PFAMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PFamsTags
 
PFAMSEQ_HAS_PROTEIN - Static variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PFAMSEQ_HAS_UNIPROTID - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamSeqDisulphide - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamSeqDisulphide entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamSeqDisulphide() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
PfamSeqDisulphide(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
PfamSeqDisulphide(Long, long, int) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
PFAMSEQDISULPHIDE - Variable in class org.jbiowh.core.datasets.domain.pfam.parser.PFamTables
 
PfamSeqhasProtein - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamSeq_has_Protein entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamSeqhasProtein() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
PfamSeqhasProtein(PfamSeqhasProteinPK) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
PfamSeqhasProtein(long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
pfamSeqhasProteinPK - Variable in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
PfamSeqhasProteinPK - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamSeqhasProtein PK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamSeqhasProteinPK() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
PfamSeqhasProteinPK(long, long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
PfamSeqhasUniProtId - Class in org.jbiowh.core.datasets.domain.pfam.jpa.entities
This class is the PfamSeq_has_UniProtId entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 12:19:50 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 344 $
PfamSeqhasUniProtId() - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
PfamSeqhasUniProtId(Long) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
PfamSeqhasUniProtId(Long, String) - Constructor for class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
PFamSQLfiles - Class in org.jbiowh.core.datasets.domain.pfam.parser.files
This class load the Pfam SQL database into the JBioWH relational schema $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 515 $
PFamSQLfiles() - Constructor for class org.jbiowh.core.datasets.domain.pfam.parser.files.PFamSQLfiles
 
PFamSQLReader - Class in org.jbiowh.core.datasets.domain.pfam.parser.files
This class read the Pfam SQL script and execute it $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PFamSQLReader() - Constructor for class org.jbiowh.core.datasets.domain.pfam.parser.files.PFamSQLReader
 
PFamsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the PFams XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
PFamTables - Class in org.jbiowh.core.datasets.domain.pfam.parser
This Class is the Pfam Table list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
PFamTaxonomyLink - Class in org.jbiowh.core.datasets.domain.pfam.parser.links
This Class is the PFAM-Taxonomy external link $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PFROM - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
PHARMACOLOGY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
PLENGTH - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
populate(Object) - Method in class org.jbiowh.core.datasets.taxonomy.utils.TaxonomyGraph
Creates the Taxonomy graph from the parent Tax Id
populate(Object, int) - Method in class org.jbiowh.core.datasets.taxonomy.utils.TaxonomyGraph
Creates the Taxonomy graph from the parent Tax Id with a depth limit If depth is equal to -1 there is not limit
populate(Object) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Populates the graph from the JBioWH main entity in the object o
populate(Object, int) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
The recursive function to populate the graph from the JBioWH main entity in the object o
PopupConstrainPanel - Class in org.jbiowh.gui.component.popup
This Class is the Constrains Panel Popup Menu $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PopupConstrainPanel(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupConstrainPanel
 
PopupCreateTable - Class in org.jbiowh.gui.component.popup
This Class is the Create table dialog popup $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
PopupCreateTable(JComponent, JTable) - Constructor for class org.jbiowh.gui.component.popup.PopupCreateTable
Create the popup on the CreateTable Dialog
PopupListView - Class in org.jbiowh.gui.component.popup
This Class is the List View's Popup Menu $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PopupListView(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupListView
Create the PopupListView object
PopupResultTab - Class in org.jbiowh.gui.component.popup
This Class is the ResultTab panel popup $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
PopupResultTab(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupResultTab
Create the PopupListView object
PopupSearchConstrain - Class in org.jbiowh.gui.component.popup
This Class is the Constrains Table Popup Menu on SearchPanel $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
PopupSearchConstrain(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupSearchConstrain
 
PopupSQLEditor - Class in org.jbiowh.gui.component.popup
This Class is the SQL Editor popup $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
PopupSQLEditor(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupSQLEditor
 
PopupSQLEditorTables - Class in org.jbiowh.gui.component.popup
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
PopupSQLEditorTables(JComponent, Set<String>) - Constructor for class org.jbiowh.gui.component.popup.PopupSQLEditorTables
 
PopupSQLSchema - Class in org.jbiowh.gui.component.popup
This Class is the SQLTablesTab panel popup $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
PopupSQLSchema(JComponent) - Constructor for class org.jbiowh.gui.component.popup.PopupSQLSchema
Creates the SQLTables popup
POSITION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
 
POSITION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
POSITION1 - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
POSITION2 - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
PreexistingEntityException - Exception in org.jbiowh.core.utility.controller.exceptions
 
PreexistingEntityException(String, Throwable) - Constructor for exception org.jbiowh.core.utility.controller.exceptions.PreexistingEntityException
 
PreexistingEntityException(String) - Constructor for exception org.jbiowh.core.utility.controller.exceptions.PreexistingEntityException
 
PRICE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
PRICES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
PricesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Prices XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
print(String) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
This method print in both file, the result and the System.out and does not includes the end of line
printDefaultHelp() - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Method to print the help
printHelp() - Method in class org.jbiowh.core.datasets.mainloader.DataSetLoader
 
printHelp() - Method in class org.jbiowh.tools.dataset.DataSetReport
 
printHelp() - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
Method to print the help
printHelp() - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighbors
Method to print the help
printHelp() - Method in class org.jbiowh.tools.examples.AntibioticGeneNeighborTax
Method to print the help
printHelp() - Method in class org.jbiowh.tools.examples.DrugPathwayGraph
 
printHelp() - Method in class org.jbiowh.tools.examples.FindALLHumProt
 
printHelp() - Method in class org.jbiowh.tools.examples.FindALLHumProtinGO
 
printHelp() - Method in class org.jbiowh.tools.examples.FindALLHumProtinGOwithConst
 
printHelp() - Method in class org.jbiowh.tools.examples.FindGenefromDrug
 
printHelp() - Method in class org.jbiowh.tools.examples.FrecPathGeneNeighbors
Method to print the help
printHelp() - Method in class org.jbiowh.tools.gene.FindGenefromProteinGi
 
printHelp() - Method in class org.jbiowh.tools.gene.GenesDrugsFromTaxonomyFamily
 
printHelp() - Method in class org.jbiowh.tools.protein.FindProtein
 
printHelp() - Method in class org.jbiowh.tools.protein.FindProteinFromTaxonomy
 
printHelp() - Method in class org.jbiowh.tools.prototypes.insert.InsertDBToDB
 
printHelp() - Method in class org.jbiowh.tools.prototypes.temp.Test
 
printHelp() - Method in class org.jbiowh.tools.taxonomy.FindTaxonomyGraph
 
println(String) - Method in class org.jbiowh.tools.defaultTools.AbstractDefaultTool
This method print in both file, the result and the System.out and includes the end of line
printObjectReference(Object) - Method in class org.jbiowh.core.logger.VerbLogger
Print the object reference
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.gene.KEGGGene
 
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGCompound
Print the Compound entry on the TSV file set
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGEnzyme
Print the Enzyme entry on the TSV file set
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGGlycan
 
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGReaction
Print the Reaction entry on the TSV file set
printOnTSVFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGRPair
Print the Rpair entry on the TSV file set
printOnTSVFile() - Method in interface org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFactory
 
printOnTSVFile(String, String, String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Print on TSV file
printOnTSVFile(String, Integer, String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Print on TSV file
printOnTSVFile(String, boolean, String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Print on TSV file
printOnTSVFile(String, Long, String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Print on TSV file
printOnTSVFileArrayListValue(boolean, long, String, String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserEntry
Print into the fileName TSV file the KEGG's field data
printPathwayOnTSVFile(Pathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.PathwayPrintOnTSVFile
Print on TSV file the Pathway object loaded from a KGML file
printProteinName(PrintWriter, List<Protein>) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinUtils
Print the protein ID (name) on the write file
printProteinName(PrintStream, List<Protein>) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinUtils
Print the protein ID (name) on the PrintStream file
PRODUCT - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
Product - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Product XML parser from JAXB for KGML file format
Product() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
 
product - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
PRODUCT - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
ProgressDialog - Class in org.jbiowh.gui.component.dialog.progress
 
ProgressDialog(Frame, boolean) - Constructor for class org.jbiowh.gui.component.dialog.progress.ProgressDialog
Creates new form ProgressDialog
PROPERTY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PropertyTypeTags
 
Property - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is the Property XMl parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Property(String, String) - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.Property
 
PROPERTY - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.PropertyTags
 
PropertyTags - Class in org.jbiowh.core.datasets.protclust.parser.xml.tags
This Class is the Property XML tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
PropertyTags() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.tags.PropertyTags
 
PropertyTypeTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the PropertyType XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Protein - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
Protein() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
Protein(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
Protein(Long, String, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
PROTEIN - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_DRUGBANK - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_DRUGBANKASCARRIERS - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_DRUGBANKASENZYME - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_DRUGBANKASTRANSPORTERS - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_GENEINFO - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_GENEPTT - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_KEGGENZYME - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_ONTOLOGY - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_PROTEINKEYWORD - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_TAXONOMY - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEIN_HAS_TAXONOMYHOST - Static variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinAccessionNumber - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Accession NUmber entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinAccessionNumber() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
ProteinAccessionNumber(ProteinAccessionNumberPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
ProteinAccessionNumber(ProteinAccessionNumberPK, int) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
ProteinAccessionNumber(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
PROTEINACCESSIONNUMBER - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinAccessionNumberPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
ProteinAccessionNumberPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinAccessionNumberPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinAccessionNumberPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
ProteinAccessionNumberPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
PROTEINBINDING - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
ProteinBioCyc - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein BioCyc entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinBioCyc() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
ProteinBioCyc(ProteinBioCycPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
ProteinBioCyc(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
PROTEINBIOCYC - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinBioCycPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
ProteinBioCycPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinBioCycPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinBioCycPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
ProteinBioCycPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
PROTEINBIOCYCTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinComment - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Comment entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinComment() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
ProteinComment(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
ProteinComment(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
PROTEINCOMMENT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinCommentConflict - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinCommentConflict entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentConflict() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
ProteinCommentConflict(ProteinCommentConflictPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
ProteinCommentConflict(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
PROTEINCOMMENTCONFLICT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinCommentConflictPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
ProteinCommentConflictPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinCommentConflictPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentConflictPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
ProteinCommentConflictPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
ProteinCommentEvent - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Comment Event entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentEvent() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
ProteinCommentEvent(ProteinCommentEventPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
ProteinCommentEvent(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
PROTEINCOMMENTEVENT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinCommentEventPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
ProteinCommentEventPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinCommentEventPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentEventPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
ProteinCommentEventPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
ProteinCommentInteract - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Comment Interact entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentInteract() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
ProteinCommentInteract(ProteinCommentInteractPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
ProteinCommentInteract(ProteinCommentInteractPK, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
ProteinCommentInteract(long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
PROTEINCOMMENTINTERACT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinCommentInteractPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
ProteinCommentInteractPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinCommentInteractPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentInteractPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
ProteinCommentInteractPK(long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
ProteinCommentIsoform - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Comment Isoform entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentIsoform() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
ProteinCommentIsoform(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
ProteinCommentIsoform(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
PROTEINCOMMENTISOFORM - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinCommentLink - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Comment Link entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentLink() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
ProteinCommentLink(ProteinCommentLinkPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
ProteinCommentLink(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
PROTEINCOMMENTLINK - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinCommentLinkPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
ProteinCommentLinkPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinCommentLinkPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentLinkPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
ProteinCommentLinkPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
ProteinCommentSubCellularLocation - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinCommentSubCellularLocation() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
ProteinCommentSubCellularLocation(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
ProteinCommentSubCellularLocation(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
PROTEINCOMMENTSUBCELLULARLOCATION - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinDataSetView - Class in org.jbiowh.gui.datasets.protein
This Class handled the Protein View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-04 11:38:29 +0100 (Tue, 04 Dec 2012) $ $LastChangedRevision: 396 $
ProteinDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.protein.ProteinDataSetView
Creates new form AbstractDataSetView
ProteinDBReference - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein DB reference entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDBReference() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
ProteinDBReference(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
ProteinDBReference(Long, long, String, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
PROTEINDBREFERENCE - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinDBReferenceProperty - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is Protein DB Reference Property entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDBReferenceProperty() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
ProteinDBReferenceProperty(ProteinDBReferencePropertyPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
ProteinDBReferenceProperty(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
PROTEINDBREFERENCEPROPERTY - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinDBReferencePropertyPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
ProteinDBReferencePropertyPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinDBReferencePropertyPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDBReferencePropertyPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
ProteinDBReferencePropertyPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
ProteinDIP - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein DIP entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDIP() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
ProteinDIP(ProteinDIPPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
ProteinDIP(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
PROTEINDIP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinDIPPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
ProteinDIPPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinDIPPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDIPPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
ProteinDIPPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
PROTEINDIPTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinDrugBank - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein DrugBank entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDrugBank() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
ProteinDrugBank(ProteinDrugBankPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
ProteinDrugBank(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
PROTEINDRUGBANK - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinDrugBankPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
ProteinDrugBankPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinDrugBankPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinDrugBankPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
ProteinDrugBankPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
PROTEINDRUGBANKTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinEC - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein EC entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinEC() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
ProteinEC(ProteinECPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
ProteinEC(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
PROTEINEC - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinECPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
ProteinECPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinECPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinECPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
ProteinECPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
PROTEINECTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinFastatoFile(String) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinToFasta
Read the Uniprot Id from the file name and print the fasta format in the PrintWriter passed to the constructor
proteinFastatoFile(Collection) - Method in class org.jbiowh.core.datasets.protein.utils.ProteinToFasta
The method receives a collection and print the proteins in the file passed to the constructor
If the objects collection is a collection of string with the UniProt Id or Accession Code the method search the protein and print the fasta format.
If the objects collection is a collection of Proteins the method print the fasta format.
ProteinFeature - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Feature entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinFeature() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
ProteinFeature(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
ProteinFeature(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
PROTEINFEATURE - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinFeatureVariation - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Feature Variation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinFeatureVariation() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
ProteinFeatureVariation(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
ProteinFeatureVariation(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
PROTEINFEATUREVARIATION - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinFromOther - Class in org.jbiowh.core.datasets.protein.utils
This class is used to retrieve proteins from other JBioWH biological objects $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinFromOther() - Constructor for class org.jbiowh.core.datasets.protein.utils.ProteinFromOther
Create a ProteinFromOther object to retrieve proteins
PROTEINGENE - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinGeneLink - Class in org.jbiowh.core.datasets.protein.parser.links
This Class create the Protein_has_Gene relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinGeneLocation - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinGeneLocation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinGeneLocation() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
ProteinGeneLocation(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
ProteinGeneLocation(Long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
PROTEINGENELOCATION - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEINGENENAME - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinGenePTTLink - Class in org.jbiowh.core.datasets.protein.parser.links
This Class populates the Protein_has_GenePTT relationship table $Author$ $LastChangedDate$ $LastChangedRevision$
PROTEINGENETEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEINGI - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
PROTEINGI - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
PROTEINGO - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEINGOTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinhasProteinKeyword - Class in org.jbiowh.core.datasets.protein.jpa.entities
This class is the Protein_has_ProteinKeyword entity
ProteinhasProteinKeyword() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
ProteinhasProteinKeyword(ProteinhasProteinKeywordPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
ProteinhasProteinKeyword(long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
proteinhasProteinKeywordPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
ProteinhasProteinKeywordPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This class is the ProteinhasProteinKeyword PK
ProteinhasProteinKeywordPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
ProteinhasProteinKeywordPK(long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
ProteinIntAct - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Intact entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIntAct() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
ProteinIntAct(ProteinIntActPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
ProteinIntAct(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
PROTEININTACT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinIntActPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
ProteinIntActPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinIntActPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIntActPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
ProteinIntActPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
PROTEININTACTTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinIsoformId - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Isoform Id entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIsoformId() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
ProteinIsoformId(ProteinIsoformIdPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
ProteinIsoformId(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
PROTEINISOFORMID - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinIsoformIdPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
ProteinIsoformIdPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinIsoformIdPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIsoformIdPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
ProteinIsoformIdPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
ProteinIsoformName - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Isoform Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIsoformName() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
ProteinIsoformName(ProteinIsoformNamePK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
ProteinIsoformName(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
PROTEINISOFORMNAME - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinIsoformNamePK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
ProteinIsoformNamePK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinIsoformNamePK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinIsoformNamePK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
ProteinIsoformNamePK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
ProteinJpaController - Class in org.jbiowh.core.datasets.protein.jpa.controller
This class is the Protein Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protein.jpa.controller.ProteinJpaController
 
ProteinKEGG - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein KEGG entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinKEGG() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
ProteinKEGG(ProteinKEGGPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
ProteinKEGG(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
PROTEINKEGG - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinKEGGEnzymeLink - Class in org.jbiowh.core.datasets.protein.parser.links
This Class create the Protein_has_KEGGEnzyme relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
proteinKEGGPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
ProteinKEGGPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinKEGGPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinKEGGPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
ProteinKEGGPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
PROTEINKEGGTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinKeyword - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Keyword entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinKeyword() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
ProteinKeyword(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
PROTEINKEYWORD - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinKeywordJpaController - Class in org.jbiowh.core.datasets.protein.jpa.controller
This class is the ProteinKeyword Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinKeywordJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protein.jpa.controller.ProteinKeywordJpaController
 
ProteinLinks - Class in org.jbiowh.core.datasets.protein.parser.links
This Class create all Protein external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinLinks() - Constructor for class org.jbiowh.core.datasets.protein.parser.links.ProteinLinks
 
ProteinListView - Class in org.jbiowh.gui.datasets.protein
This Class shows the Protein List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinListView(Collection<Protein>, JComponent) - Constructor for class org.jbiowh.gui.datasets.protein.ProteinListView
Create the Protein List object
ProteinLongName - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Long Name $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinLongName() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
ProteinLongName(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
ProteinLongName(Long, long, String, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
PROTEINLONGNAME - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinMINT - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein MINT entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinMINT() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
ProteinMINT(ProteinMINTPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
ProteinMINT(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
PROTEINMINT - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinMINTPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
ProteinMINTPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinMINTPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinMINTPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
ProteinMINTPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
PROTEINMINTTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinName - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Name entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinName() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
ProteinName(ProteinNamePK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
ProteinName(ProteinNamePK, int) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
ProteinName(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
PROTEINNAME - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinNamePK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
ProteinNamePK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinNamePK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinNamePK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
ProteinNamePK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
ProteinOntologyLink - Class in org.jbiowh.core.datasets.protein.parser.links
This Class create the Protein_has_Ontology relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinOtherLocation - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein Other Location entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinOtherLocation() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
ProteinOtherLocation(Long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
ProteinOtherLocation(Long, long, long) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
PROTEINOTHERLOCATION - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinParser - Class in org.jbiowh.core.datasets.protein.parser
This Class is the Protein Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinParser() - Constructor for class org.jbiowh.core.datasets.protein.parser.ProteinParser
 
ProteinPDB - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is Protein PDB entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPDB() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
ProteinPDB(ProteinPDBPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
ProteinPDB(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
PROTEINPDB - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinPDBPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
ProteinPDBPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinPDBPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPDBPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
ProteinPDBPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
PROTEINPDBTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinPFAM - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein PFAM entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPFAM() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
ProteinPFAM(ProteinPFAMPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
ProteinPFAM(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
PROTEINPFAM - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinPFAMPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
ProteinPFAMPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinPFAMPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPFAMPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
ProteinPFAMPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
PROTEINPFAMTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinPMID - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the Protein PMID entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPMID() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
ProteinPMID(ProteinPMIDPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
ProteinPMID(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
PROTEINPMID - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinPMIDPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
ProteinPMIDPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinPMIDPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinPMIDPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
ProteinPMIDPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
PROTEINPMIDTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinRefSeq - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinRefSeq entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinRefSeq() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
ProteinRefSeq(ProteinRefSeqPK) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
ProteinRefSeq(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
PROTEINREFSEQ - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
proteinRefSeqPK - Variable in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
ProteinRefSeqPK - Class in org.jbiowh.core.datasets.protein.jpa.entities
This Class is the ProteinRefSeqPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinRefSeqPK() - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
ProteinRefSeqPK(long, String) - Constructor for class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
PROTEINREFSEQTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
PROTEINSEQUENCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ProteinSequencesTags
 
PROTEINSEQUENCES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ProteinSequencesTags
 
ProteinSequencesTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the ProteinSequences XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinTables - Class in org.jbiowh.core.datasets.protein.parser
This Class is the Protein tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
PROTEINTAXID - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProteinTaxonomyLink - Class in org.jbiowh.core.datasets.protein.parser.links
This Class create the Protein_has_Taxonomy relationship table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinToFasta - Class in org.jbiowh.core.datasets.protein.utils
This class is used to print Proteins sequences in fasta format $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
ProteinToFasta(PrintWriter) - Constructor for class org.jbiowh.core.datasets.protein.utils.ProteinToFasta
Create a ProteinToFasta object
ProteinTransfer - Class in org.jbiowh.core.datasets.protein.jpa.transfer
This class handled the Protein transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
ProteinTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protein.jpa.transfer.ProteinTransfer
Create the Protein transfer
ProteinTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.protein.jpa.transfer.ProteinTransfer
Create the Protein transfer
ProteinType - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the ProteinType on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ProteinType() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
This constructor initialize the WH file manager and the WH DataSet manager
ProteinTypeTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Tags for ProteinType $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ProteinTypeTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.ProteinTypeTags
 
ProteinUtils - Class in org.jbiowh.core.datasets.protein.utils
$Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
PROTEINWIDKEYWORDTEMP - Variable in class org.jbiowh.core.datasets.protein.parser.ProteinTables
 
ProtFamDataSetView - Class in org.jbiowh.gui.datasets.protfam
This Class handled the ProtFam View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
ProtFamDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.protfam.ProtFamDataSetView
Creates new form AbstractDataSetView
PTO - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
PTTFILE - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
put(String, SQLTableColumn) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Maps the specified key to the specified SQLTableColumn column in this table.
put(String, SQLTableIndexColumn) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Maps the specified key to the specified SQLTableIndexColumn index in this table.
put(String, SQLTableIndex) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Maps the specified key to the specified SQLTableIndex column in this table.

R

RCLASS - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
reaction - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
reaction - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
Reaction - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Reaction XML parser from JAXB for KGML file format
Reaction() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
REACTION - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
readDatasetFromFile(String) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Read the Data source information from the XML file
readKEGGEntryFile() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFile
Read the KEG file and return the first entry.
ReadLinesToList - Class in org.jbiowh.core.utility.utils
This class is used to read lines from a file and put it on a list $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-16 14:56:20 +0200 (Tue, 16 Oct 2012) $ $LastChangedRevision: 300 $
readLinesToList(String, String) - Method in class org.jbiowh.core.utility.utils.ReadLinesToList
Create a string matrix with the fields on the file
readLinesToList(String) - Method in class org.jbiowh.core.utility.utils.ReadLinesToList
Read lines from a file and put it on a list
readLinesToList(File) - Method in class org.jbiowh.core.utility.utils.ReadLinesToList
Read lines from a file and put it on a list
readLinesToList(BufferedReader) - Method in class org.jbiowh.core.utility.utils.ReadLinesToList
Read lines from a file and put it on a list
RECORD - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
Reference - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Reference tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Reference() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Reference
This constructor initialize the WH file manager and the WH DataSet manager
REFERENCES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.BondTypeTags
 
REFERENCES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PartnerTags
 
ReferenceTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Reference tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ReferenceTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.ReferenceTags
 
RELATEDPAIR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
relation - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
Relation - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Relation XML parser from JAXB for KGML file format
Relation() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
 
REMARK - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
REMARK - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
REMARK - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
remove(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Removes the key (and its corresponding value) from this map
remove(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Removes the key (and its corresponding value) from this map
remove(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Removes the key (and its corresponding value) from this map
remove(DocumentFilter.FilterBypass, int, int) - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLDocumentFilter
 
removeActionListener(ActionListener) - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
removeCurrentNode() - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Remove the currently selected node.
removeIntResult(String, String) - Method in class org.jbiowh.core.utility.utils.SavedResults
Remove the internal result into the key with id
removeNode(TreePath) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Remove from node.
removeNode(String) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Remove the node with the name
reNumColumn() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Renumbering the column's internal number.
reNumIndex() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Renumbering the index's column internal number.
replace(DocumentFilter.FilterBypass, int, int, String, AttributeSet) - Method in class org.jbiowh.gui.component.panel.sql.syntax.SQLDocumentFilter
 
REPRESENTATIVEMEMBER - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
RESOURCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalIdentifiersTags
 
RESOURCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalLinksTags
 
RESOURCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.IdentifiersTypeTags
 
ResultPanel - Class in org.jbiowh.gui.component.panel.result
This Class handled the Result Tab $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
ResultPanel(JTabbedPane) - Constructor for class org.jbiowh.gui.component.panel.result.ResultPanel
 
ResultPanelFactory - Class in org.jbiowh.gui.component.panel.result
This Class is the ResultPanel Factory $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
RF - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
rmColumn(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Remove the column by its number
rmEntity(Class) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Remove the JBioWH entity from the list of entities that will be inserted on the JBioWH copy process
rmEntity(Object) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Remove the JBioWH entity from the list of entities that will be inserted on the JBioWH copy process
rmEntity(Object, EntityManagerFactory) - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
Remove the JBioWH entity from the list of entities that will be inserted on the JBioWH copy process
rmIndex(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Remove the index by its number
rmIndexColumn(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Remove the index column by its number
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
 
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
 
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
 
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Remove a row
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
 
rmRow(int) - Method in class org.jbiowh.gui.component.table.model.ListTableModel
Remove the row of data to table model
ROUTE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
 
ROUTEOFELIMINATION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
RPAIR - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
runLink() - Method in class org.jbiowh.core.datasets.disease.omim.parser.links.OMIMLinks
Create all Gene external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamLinks
Create all PFam external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamOntologyLink
Create the PFAM-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamProteinLink
Create the PFAM-Protein relationship table
runLink() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.links.PFamTaxonomyLink
Create the PFAM-Taxonomy relationship table
runLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.links.DrugBankLinks
Create all DrugBank external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.links.DrugBankProteinLink
Create the Protein-DrugBank relationship table
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GeneGenePTTLink
Create the Gene-GenePTT relationship table
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GeneKEGGGeneLink
Create the Gene-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GeneLinks
Create all Gene external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GeneOMIMLink
Create the Gene-OMIM relationship table
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GeneOntologyLink
Create the Gene-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GenePTTLinks
Create all Gene external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.gene.parser.links.GenePTTTaxonomyLink
Create the GenePTT-Taxonomy relationship table
runLink() - Method in class org.jbiowh.core.datasets.ontology.parser.links.OntologyLinks
Create all Ontology external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGCompoundDrugBankLink
Create the KEGGPathway-Taxonomy relationship table
runLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGLinks
Create all KEGG external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayGeneInfoLink
Create the KEGGPathway-GeneInfo relationship table
runLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayProteinLink
Create the KEGGPathway-Protein relationship table
runLink() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.links.KEGGPathwayTaxonomyLink
Create the KEGGPathway-Taxonomy relationship table
runLink() - Method in class org.jbiowh.core.datasets.ppi.parser.links.MIF25Links
Create all MIF25 external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.ppi.parser.links.MIF25ProteinLink
Create the MIF25-Protein relationship table
runLink() - Method in class org.jbiowh.core.datasets.protclust.parser.links.UniRefLinks
Create all Protein external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.protclust.parser.links.UniRefProteinLink
Create the Protein-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinGeneLink
Create the Protein-Gene relationship table
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinGenePTTLink
Create the Protein-Gene relationship table
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinKEGGEnzymeLink
Create the Protein-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinLinks
Create all Protein external relationship tables
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinOntologyLink
Create the Protein-Ontology relationship table
runLink() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinTaxonomyLink
Create the Protein-Taxonomy relationship table
runLink() - Method in class org.jbiowh.core.datasets.taxonomy.parser.links.TaxonomyLinks
Create all Taxonomy external relationship tables
runLinkHost() - Method in class org.jbiowh.core.datasets.protein.parser.links.ProteinTaxonomyLink
Create the Protein-Taxonomy Host relationship table
runLoader() - Method in class org.jbiowh.core.datasets.disease.omim.parser.OMIMParser
 
runLoader() - Method in class org.jbiowh.core.datasets.domain.pfam.parser.PFamParser
 
runLoader() - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.DrugBankParser
Run the DrugBank Parser
runLoader() - Method in class org.jbiowh.core.datasets.gene.parser.GeneParser
Run the Taxonomy Parser
runLoader() - Method in class org.jbiowh.core.datasets.gene.parser.GenePTTParser
 
runLoader() - Method in interface org.jbiowh.core.datasets.mainloader.ParseFactory
Run the desired parser
runLoader() - Method in class org.jbiowh.core.datasets.ontology.parser.OntologyParser
Run the Taxonomy Parser
runLoader() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.KEGGParser
 
runLoader() - Method in class org.jbiowh.core.datasets.ppi.parser.MIF25Parser
Run the MIF25 Parser
runLoader() - Method in class org.jbiowh.core.datasets.protclust.parser.UniRefParser
Run the UniRef Parser
runLoader() - Method in class org.jbiowh.core.datasets.protein.parser.ProteinParser
Run the Protein Parser
runLoader() - Method in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyParser
Run the Taxonomy Parser

S

SA - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
save() - Method in class org.jbiowh.gui.save.SaveToFile
 
SaveActionListener - Class in org.jbiowh.gui.actions.jbiowh
This class launch the save action on the main window $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SaveActionListener(JBioWH) - Constructor for class org.jbiowh.gui.actions.jbiowh.SaveActionListener
Launch the save action on the main window
SavedResults - Class in org.jbiowh.core.utility.utils
This Class is storage the previously saved results $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SaveToFile - Class in org.jbiowh.gui.save
This Class is save a result to a file $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SaveToFile(Component) - Constructor for class org.jbiowh.gui.save.SaveToFile
Creates a SaveToFile object to save the objects inside the component
SaveToFile(Component, Object) - Constructor for class org.jbiowh.gui.save.SaveToFile
Creates a SaveToFile object to save the objects inside the component
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.protclust.search.SearchUniRef
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.protein.search.SearchProtein
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
search(String, JPLConstrains) - Method in class org.jbiowh.core.utility.utils.SearchFactory
Perform the search
search(List, JPLConstrains) - Method in class org.jbiowh.core.utility.utils.SearchFactory
Perform the search
searchByWID(long, Class) - Method in class org.jbiowh.core.utility.utils.SearchFactory
Search Entity by WID
searchByWID(List, Class) - Method in class org.jbiowh.core.utility.utils.SearchFactory
Search Entity from a WID list
SearchDrugBank - Class in org.jbiowh.core.datasets.drug.drugbank.search
This class perform the search over the DrugBank module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-27 14:55:04 +0100 (Tue, 27 Nov 2012) $ $LastChangedRevision: 345 $
SearchDrugBank() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
Creates the DrugBank search object
SearchFactory - Class in org.jbiowh.core.utility.utils
This Class is the abstract search factory $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SearchFactory() - Constructor for class org.jbiowh.core.utility.utils.SearchFactory
 
SearchGeneInfo - Class in org.jbiowh.core.datasets.gene.search
This Class perform the search over the Gene module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-09-25 00:06:19 +0200 (Tue, 25 Sep 2012) $ $LastChangedRevision: 396 $
SearchGeneInfo() - Constructor for class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
Create the Gene search object
SearchGenePTT - Class in org.jbiowh.core.datasets.gene.search
This Class perform the search over the GenePTT module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 396 $
SearchGenePTT() - Constructor for class org.jbiowh.core.datasets.gene.search.SearchGenePTT
Creates the GenePTT search object
SearchKEGGCompound - Class in org.jbiowh.core.datasets.pathway.kegg.search
This Class perform the search over the KEGGCompound module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SearchKEGGCompound() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGCompound
 
SearchKEGGEnzyme - Class in org.jbiowh.core.datasets.pathway.kegg.search
This Class perform the search over the KEGGEnzyme module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SearchKEGGEnzyme() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 
SearchKEGGGene - Class in org.jbiowh.core.datasets.pathway.kegg.search
This Class perform the search over the KEGGGene module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SearchKEGGGene() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGene
 
SearchKEGGGlycan - Class in org.jbiowh.core.datasets.pathway.kegg.search
This Class perform the search over the KEGGGlycan module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SearchKEGGGlycan() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGGlycan
 
SearchKEGGPathway - Class in org.jbiowh.core.datasets.pathway.kegg.search
This class perform the search over the KEGGPathway module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SearchKEGGPathway() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
SearchKEGGReaction - Class in org.jbiowh.core.datasets.pathway.kegg.search
This Class perform the search over the KEGGReaction module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SearchKEGGReaction() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGReaction
 
SearchOMIM - Class in org.jbiowh.core.datasets.disease.omim.search
This Class perform the search over the OMIM module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SearchOMIM() - Constructor for class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
SearchOntology - Class in org.jbiowh.core.datasets.ontology.search
This Class perform the search over the Ontology module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SearchOntology() - Constructor for class org.jbiowh.core.datasets.ontology.search.SearchOntology
This Class perform the search over the Ontology module
SearchPanel - Class in org.jbiowh.gui.component.panel
This JPanel is the Search interface $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-04 11:38:29 +0100 (Tue, 04 Dec 2012) $ $LastChangedRevision: 396 $
SearchPanel(JComponent) - Constructor for class org.jbiowh.gui.component.panel.SearchPanel
Creates new form SearchPanel
SearchPFam - Class in org.jbiowh.core.datasets.domain.pfam.search
This class perform the search over the PFam module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 377 $
SearchPFam() - Constructor for class org.jbiowh.core.datasets.domain.pfam.search.SearchPFam
 
SearchProtein - Class in org.jbiowh.core.datasets.protein.search
This Class perform the search over the Protein module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-12-27 15:38:46 +0100 (Thu, 27 Dec 2012) $ $LastChangedRevision: 396 $
SearchProtein() - Constructor for class org.jbiowh.core.datasets.protein.search.SearchProtein
This Class perform the search over the Protein module
SearchTaxonomy - Class in org.jbiowh.core.datasets.taxonomy.search
This Class perform the search over the Taxonomy module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SearchTaxonomy() - Constructor for class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
This Class perform the search over the Taxonomy module
SearchUniRef - Class in org.jbiowh.core.datasets.protclust.search
This Class perform the search over the UniRef module $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SearchUniRef() - Constructor for class org.jbiowh.core.datasets.protclust.search.SearchUniRef
This Class perform the search over the UniRef module
SECONDARYACCESSIONNUMBER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SecondaryAccessionNumbersTags
 
SECONDARYACCESSIONNUMBERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SecondaryAccessionNumbersTags
 
SecondaryAccessionNumbersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the SecondaryAccessionNumbers XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
selectAll() - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
selectCell(String) - Method in class org.jbiowh.gui.component.graph.EntityRelationshipDialog
 
Sequence - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML Sequence Tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Sequence() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Sequence
This constructor initialize the WH file manager and the WH DataSet manager
SequenceTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML Sequence Tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SequenceTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.SequenceTags
 
SequenceTypeTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the SequenceType XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SequenceTypeTags() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SequenceTypeTags
 
setAbbreviation(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setAbsorption(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setAbstract1(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
setAcc(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
setAccessionNumber(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
setAccessionNumber(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
setAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
setAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
setAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
setAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
setAffectedOrganisms(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
setAHFSCodes(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
setAI(boolean) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column as AI
setAlias(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setAliEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setAliEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setAliStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setAliStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setAlt(Alt) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Sets the value of the alt property.
setAlt(Alt) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Sets the value of the alt property.
setAltId(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
setApplication(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's application name
setApplicationVersion(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's application version
setApproved(Date) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setArchitecture(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setArchitectureAcc(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setAsMainSchema(String, boolean) - Method in class org.jbiowh.core.dbms.WHDBMS
Set the URL as main schema
setAssembly(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setATCCode(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
setAttribType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
setAttribute(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setAttribValue(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
setAuthor(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setAuthor(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setAuthor(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
setAutoPfamseq(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
setAutoPfamseq(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
setAv(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
setAvailability(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
setAvailabilityRef(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setAverageCoverage(Double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setAverageLength(Double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setBackground(Color) - Method in class org.jbiowh.gui.component.tree.TreeSchemaRenderer
 
setBase(Float) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setBeginIntervalBegin(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setBeginIntervalEnd(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setBeginPos(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setBeginPosition(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setBeginStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setbGColor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setBGColor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setBgcolor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the bgcolor property.
setBiotransformation(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setBondEnd(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
setBondStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
setBrand(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
setBuildMethod(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setcASNumber(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setCASNumber(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setCategory(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
setCd(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
setCellEditable(boolean, int, int) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the editable field for the cell
setCellEditable(boolean, int[], int[]) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the editable field for the cell
setChain(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setChain(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setChain(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
setChangeDate(Date) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's change date
setChangeStatus(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setChecksum(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setChecksum(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setChromosome(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setCigar(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setCigar(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setCigar(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
setCite(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
setCite(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
setCite(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
setCite(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
setCite(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
setCitId(int) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
setCitKey(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
setClanAcc(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setClanAuthor(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setClanComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setClanDescription(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setClanId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setClass1(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
setClass1(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
setClass1(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
setClearance(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setCn(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
setCode(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setCode(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
setCode(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setCog(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setCollection(Collection<T>) - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Set the collection
setColumnNames(String[]) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the column's name
setColumns(SQLTableColumns) - Method in class org.jbiowh.core.dbms.sql.SQLTable
Set the table's columns
setColumns(ConcurrentHashMap<String, SQLTableIndexColumn>) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Set the index's columns
setComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
setComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setComment(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
setComment(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setComment(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setComment(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setComment(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setComment(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setComment(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
setComments(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setCompeted(Boolean) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setComponent(Boolean) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setComposition(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setConn(Connection) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Set the MySQL connection
setConn(Connection) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set the MySQL connection
setConstrains(List) - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
Set the constrains
setConstrains(JPLConstrains) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
setContents(List<List<Object>>) - Method in class org.jbiowh.gui.component.table.model.ListTableModel
Set the data object
setCoord(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setCoords(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the coords property.
setCost(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setCount(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
setCountry(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setCreated(Date) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setCreated(Date) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setCreated(Date) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setCreated(Date) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setCs(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
setCurrency(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setCurrent(int) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Set the index position to the index
setCurrent(GenePTT) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Set the current gene to the GenePTT (gene) object
setCytogLoc(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setCytogLog(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setData(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
setData(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setData(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
setData(List) - Method in class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Set the data list
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setDataset(DataSet) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the DataSet object loaded
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDataSet(DataSet) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setDataSetIn(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setDataSetWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setDate(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setDay(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setDb(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
setDb(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
setDb(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
setDb(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
setDb(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setDb(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setDb(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setDb(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setDb(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setdBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setDBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setdBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setDBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setdBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setDBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setdBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setDBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setdBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setDBAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setDbId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setDbId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setDbLink(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setDbLink(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setDBName(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
setDBName(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
setDef(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setDef(Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column's default value
setDefinition(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setDefinition(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setDepositedBy(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDepositedBy(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setDescription(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDescription(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDescription(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
setDescription(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setDescription(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setDescription(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setDirectory(String) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the data source directory
setDisease(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setDisorder(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setDisplayed(List) - Method in class org.jbiowh.gui.component.table.model.data.ExtendedModelData
Set the displayed list
setDivision(TaxonomyDivision) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setDomain(Boolean) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setDomainBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setDomainBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setDomainBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setDomainEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setDomainEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setDomainEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setDomainGA(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDomainNC(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDomainOder(Short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setDomainOrder(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setDomainScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setDomainTC(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setDriver(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Set the MySQL JAVA driver
setDriver(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set the MySQL JAVA driver
setDroptables(boolean) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the drop tables parameter
setDrug(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setDrugBank(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
setDrugBank(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
setDrugBank(DrugBank) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setDrugBank(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDrugBankAffectedOrganisms(Set<DrugBankAffectedOrganisms>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankAHFSCodes(Set<DrugBankAHFSCodes>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankAsCarriers(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDrugBankAsEnzyme(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDrugBankAsTransporters(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setDrugBankATCCodes(Set<DrugBankATCCodes>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankBrands(Set<DrugBankBrands>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankCalculatedProperties(Set<DrugBankCalculatedProperties>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankCarriers(Set<DrugBankCarriers>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankCarriers(DrugBankCarriers) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
setDrugBankCarriers(DrugBankCarriers) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
setDrugBankCarriersActions(Set<DrugBankCarriersActions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setDrugBankCarriersRef(Set<DrugBankCarriersRef>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setDrugBankCarriersWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
setDrugBankCarriersWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
setDrugBankCategories(Set<DrugBankCategories>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankDosages(Set<DrugBankDosages>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankDrugInteractions(Map<DrugBankDrugInteractionsPK, DrugBankDrugInteractions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankDrugInteractionsPK(DrugBankDrugInteractionsPK) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
setDrugBankEnzymes(Set<DrugBankEnzymes>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankEnzymes(DrugBankEnzymes) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
setDrugBankEnzymes(DrugBankEnzymes) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
setDrugBankEnzymesActions(Set<DrugBankEnzymesActions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setDrugBankEnzymesRef(Set<DrugBankEnzymesRef>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setDrugBankEnzymesWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
setDrugBankEnzymesWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
setDrugBankExperimentalProperties(Set<DrugBankExperimentalProperties>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankExternalIdentifiers(Set<DrugBankExternalIdentifiers>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankExternalLinks(Set<DrugBankExternalLinks>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankFoodInteractions(Set<DrugBankFoodInteractions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankGeneralRef(Set<DrugBankGeneralRef>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankGroup(Set<DrugBankGroup>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankManufacturers(Set<DrugBankManufacturers>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankMixtures(Set<DrugBankMixtures>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankPackagers(Set<DrugBankPackagers>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankPatents(Set<DrugBankPatents>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankPrices(Set<DrugBankPrices>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankProteinSequences(Set<DrugBankProteinSequences>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBanks(Set<DrugBank>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setDrugBankSecondAccessionNumbers(Set<DrugBankSecondAccessionNumbers>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankSynonyms(Set<DrugBankSynonyms>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankTargets(Set<DrugBankTargets>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankTargets(DrugBankTargets) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
setDrugBankTargets(DrugBankTargets) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
setDrugBankTargetsActions(Set<DrugBankTargetsActions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setDrugBankTargetsRef(Set<DrugBankTargetsRef>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setDrugBankTargetsWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
setDrugBankTargetsWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
setDrugBankTaxonomy(Set<DrugBankTaxonomy>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankTaxonomySubstructures(Set<DrugBankTaxonomySubstructures>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankTransporters(Set<DrugBankTransporters>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setDrugBankTransporters(DrugBankTransporters) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
setDrugBankTransporters(DrugBankTransporters) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
setDrugBankTransportersActions(Set<DrugBankTransportersActions>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setDrugBankTransportersRef(Set<DrugBankTransportersRef>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setDrugBankTransportersWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
setDrugBankTransportersWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
setDrugBankWID(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setDsspCode(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setEd(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
setEdit(boolean[]) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the default edit array for each column
setEditCell(List<List<Boolean>>) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the edit matrix for all the cells
setElement(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
seteMBLCode(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setEndFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setEndIntervalBegin(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setEndIntervalEnd(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setEndPos(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setEndPosition(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setEndPositionOnTheGenomicAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setEndShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setEndStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setEngine(String) - Method in class org.jbiowh.core.dbms.sql.SQLTable
Set the table's engine
setEnsemblGeneIdentifier(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setEnsemblProteinIdentifier(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setEnsemblRNAIdentifier(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setEntries(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setEntry(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setEntry1(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Sets the value of the entry1 property.
setEntry2(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Sets the value of the entry2 property.
setEquation(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setError(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setEventType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setEvidence(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
setExistence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setExperimentRef(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
setExperimentRef(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setExperiments(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setExpires(Date) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setExponent(Float) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setFactor(Float) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setfGColor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setFGColor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setFgcolor(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the fgcolor property.
setFields(HashMap<String, Class>) - Method in class org.jbiowh.core.utility.utils.SearchFactory
Set the available search fields
setFill(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
setFoodInteractions(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
setForm(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setFormula(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setForwardLambda(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setForwardTau(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setFragment(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setFragment(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setFullConsensus(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setFullNameFromNomenclatureAuthority(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGencode(TaxonomyGenCode) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setGenCodeId(int) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setGene2Accession(Map<Gene2AccessionPK, Gene2Accession>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGene2AccessionPK(Gene2AccessionPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setGene2Ensembl(Set<Gene2Ensembl>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGene2PMID(Map<Gene2PMIDPK, Gene2PMID>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGene2PMIDPK(Gene2PMIDPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
setGene2STS(Map<Gene2STSPK, Gene2STS>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGene2STSPK(Gene2STSPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
setGene2UniGene(Map<Gene2UniGenePK, Gene2UniGene>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGene2UniGenePK(Gene2UniGenePK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
setGeneGroup(Map<GeneGroupPK, GeneGroup>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGeneGroupPK(GeneGroupPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
setGeneId(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setGeneID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
setGeneInfo(GeneInfo) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setGeneInfo(Set<GeneInfo>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setGeneInfo(Set<GeneInfo>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setGeneInfo(Set<GeneInfo>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setGeneInfoDBXrefs(Map<GeneInfoDBXrefsPK, GeneInfoDBXrefs>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGeneInfoDBXrefsPK(GeneInfoDBXrefsPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
setGeneInfos(Set<GeneInfo>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setGeneInfos(Set<GeneInfo>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setGeneInfoSynonyms(Map<GeneInfoSynonymsPK, GeneInfoSynonyms>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGeneInfoSynonymsPK(GeneInfoSynonymsPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
setGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
setGeneLocusTag(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setGenePTT(GenePTT) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setGenePTT(GenePTT) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setGenePTTs(List<GenePTT>) - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Set the list of genes on the chromosome.
setGeneRefSeqUniprotPK(GeneRefSeqUniprotPK) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
setGeneric(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
setGeneStatus(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setGeneSymbol(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setGenomicNucleotideAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setGenomicNucleotideAccessionVersion(Integer) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setGenomicNucleotideGi(BigInteger) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setGrouping(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setGroupName(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
setHalfLife(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setHeader(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
setHeight(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setHeight(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the height property.
setHexColour(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setHomeURL(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's Home URL
setId(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setId(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
setId(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setId(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
setId(int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setId(int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Component
Sets the value of the id property.
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Sets the value of the id property.
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Sets the value of the id property.
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Sets the value of the id property.
setId(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Sets the value of the id property.
setId(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setId(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setId(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setId(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setId(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
setId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setId(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setId(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setId(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
setId(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
setId(int) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
setId1(int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setId2(int) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setIdentifier(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
setImage(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setImage(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the image property.
setImexId(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setIndexes(SQLTableIndexes) - Method in class org.jbiowh.core.dbms.sql.SQLTable
Set the table's indexes
setIndexName(String) - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
Set the active index's name showed on the Index Column table
setIndication(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setInFull(short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setInFull(short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setIngredients(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
setInheritedDivision(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setInheritedGencode(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setInheritedMCGencode(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setIntactID(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
setInteractionRef(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setInteractorRef(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setInteractorRef(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setInterproId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
setIntraMolecular(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setIsAOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
setIsAOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
setIsLink(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setIsObsolete(boolean) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setIsRepresentative(Boolean) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setItem(Object) - Method in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
setJbiowhSchema(boolean) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
 
setJbiowhSchema(boolean) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set to true if this connection belongs to a JBioWH default schema
setJournal(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setjTViewColumn(List<List<Object>>, int) - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Set the Link Table format
setkEGGCompound(KEGGCompound) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
setkEGGCompound(KEGGCompound) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
setkEGGCompound(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setkEGGCompoundAsCofactor(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGCompoundAsEffector(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGCompoundAsInhibitor(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGCompoundAsProduct(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGCompoundAsSubstrate(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGCompoundDBLink(Map<KEGGCompoundDBLinkPK, KEGGCompoundDBLink>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setKEGGCompoundDBLinkPK(KEGGCompoundDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
setkEGGCompoundName(Set<KEGGCompoundName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGCompounds(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setkEGGCompounds(Set<KEGGCompound>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setKEGGCompoundWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
setkEGGCompoundWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
setKEGGCompoundWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
setkEGGEnzyme(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
setkEGGEnzyme(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
setkEGGEnzyme(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
setkEGGEnzyme(KEGGEnzyme) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
setkEGGEnzyme(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGEnzymeAsCofactor(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGEnzymeAsEffector(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGEnzymeAsInhibitor(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGEnzymeClass(Set<KEGGEnzymeClass>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGEnzymeDBLink(Map<KEGGEnzymeDBLinkPK, KEGGEnzymeDBLink>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setKEGGEnzymeDBLinkPK(KEGGEnzymeDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
setkEGGEnzymeName(Set<KEGGEnzymeName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGEnzymeOrthology(Map<KEGGEnzymeOrthologyPK, KEGGEnzymeOrthology>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setKEGGEnzymeOrthologyPK(KEGGEnzymeOrthologyPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
setkEGGEnzymes(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setkEGGEnzymes(Set<KEGGEnzyme>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setkEGGEnzymeSysName(Set<KEGGEnzymeSysName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setKEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
setkEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
setKEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
setKEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
setkEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
setKEGGEnzymeWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
setkEGGGene(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
setkEGGGene(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setkEGGGene(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
setkEGGGene(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
setkEGGGene(KEGGGene) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
setkEGGGeneDBLink(Map<KEGGGeneDBLinkPK, KEGGGeneDBLink>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setKegggenedblinkPK(KEGGGeneDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
setKEGGGeneDBLinkPK(KEGGGeneDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
setkEGGGeneDisease(Set<KEGGGeneDisease>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setkEGGGeneDrugTarget(Map<KEGGGeneDrugTargetPK, KEGGGeneDrugTarget>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setKEGGGeneDrugTargetPK(KEGGGeneDrugTargetPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
setkEGGGeneName(Set<KEGGGeneName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setkEGGGeneOrthology(Map<KEGGGeneOrthologyPK, KEGGGeneOrthology>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setKEGGGeneOrthologyPK(KEGGGeneOrthologyPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
setkEGGGenes(Set<KEGGGene>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setkEGGGenes(Set<KEGGGene>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setKEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
setkEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setKEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setKEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
setkEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
setKEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
setKEGGGeneWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
setkEGGGlycan(KEGGGlycan) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
setkEGGGlycan(KEGGGlycan) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
setkEGGGlycanAsProduct(Set<KEGGGlycan>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGGlycanAsSubstrate(Set<KEGGGlycan>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGGlycanClass(Set<KEGGGlycanClass>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setkEGGGlycanDBLink(Map<KEGGGlycanDBLinkPK, KEGGGlycanDBLink>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setKeggglycandblinkPK(KEGGGlycanDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
setKEGGGlycanDBLinkPK(KEGGGlycanDBLinkPK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
setkEGGGlycanName(Set<KEGGGlycanName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setKEGGGlycanWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
setkEGGGlycanWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
setKEGGGlycanWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
setkEGGPathway(KEGGPathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setkEGGPathway(KEGGPathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setkEGGPathway(KEGGPathway) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setkEGGPathwayEntry(Set<KEGGPathwayEntry>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setkEGGPathwayEntry(KEGGPathwayEntry) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setkEGGPathwayEntryGraphic(Set<KEGGPathwayEntryGraphic>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setkEGGPathwayEntryWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setKEGGPathwayEntryWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setkEGGPathwayReaction(Set<KEGGPathwayReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setkEGGPathwayRelation(Set<KEGGPathwayRelation>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setkEGGPathwayRelation(KEGGPathwayRelation) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
setkEGGPathwayRelationSubType(Map<KEGGPathwayRelationSubTypePK, KEGGPathwayRelationSubType>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setKeggpathwayrelationsubtypePK(KEGGPathwayRelationSubTypePK) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
setKEGGPathwayRelationWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGPathways(Set<KEGGPathway>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setkEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setKEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setkEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setKEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setkEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setKEGGPathwayWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setkEGGReaction(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setkEGGReaction(KEGGReaction) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
setkEGGReactionAsProduct(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGReactionAsProduct(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setkEGGReactionAsSubstrate(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setkEGGReactionAsSubstrate(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setkEGGReactionName(Set<KEGGReactionName>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setkEGGReactions(Set<KEGGReaction>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setkEGGReactionWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
setKEGGReactionWID(long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
setkEGGRPair(Set<KEGGRPair>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setKeyword(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
setKeywords(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setKind(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setKind(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setKingdom(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
setKnownAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setLabel(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
setLabel(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
setLength(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setLength(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Set the column's length
setLevel(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setLevel(int) - Method in class org.jbiowh.core.logger.VerbLogger
Set the information level to print the messages
setLink(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
setLink(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
setLink(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
setLink(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
setLink(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
setLink(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setLink(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setLink(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Sets the value of the link property.
setLink(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the link property.
setLoadDate(Date) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's load date
setLoadedBy(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's load user
setLocation(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setLocationType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setLocusTag(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setManufacturer(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
setMapLocation(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setMass(Float) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setMass(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setMass(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setMass(Float) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setMass(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setMcgencode(TaxonomyGenCode) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setMechanismOfAction(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setMethod(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
setMethod(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setMethod(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifBioSourceTypeCellType(Set<MIFBioSourceTypeCellType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifBioSourceTypeCellType(MIFBioSourceTypeCellType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifBioSourceTypeCompartment(Set<MIFBioSourceTypeCompartment>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifBioSourceTypeCompartment(MIFBioSourceTypeCompartment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifBioSourceTypeTissue(MIFBioSourceTypeTissue) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifBioSourceTypeTissueD(Set<MIFBioSourceTypeTissue>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifEntryExperiment(Set<MIFEntryExperiment>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifEntryExperiment(Set<MIFEntryExperiment>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifEntryExperiment(MIFEntryExperiment) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setmIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setmIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setmIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMIFEntryExperimentWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifEntryInteraction(Set<MIFEntryInteraction>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifEntryInteraction(MIFEntryInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setmIFEntryInteraction(Set<MIFEntryInteraction>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setmIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setMIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setmIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setmIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMIFEntryInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifEntryInteractor(Set<MIFEntryInteractor>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntryInteractor(Set<MIFEntryInteractor>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifEntryInteractor(MIFEntryInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifEntryInteractor(Set<MIFEntryInteractor>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setmIFEntryInteractorWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMIFEntryInteractorWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setmIFEntrySet(MIFEntrySet) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntrySetEntry(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setmIFEntrySetEntry(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifEntrySetEntry(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setmIFEntrySetEntry(Set<MIFEntrySetEntry>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setmIFEntrySetEntry(MIFEntrySetEntry) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setmIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setmIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setmIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setmIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setMIFEntrySetEntryWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setmIFEntrySetWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntrySource(Set<MIFEntrySource>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setMifEntrySource(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifEntrySource(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifEntrySource(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setMifEntrySource(MIFEntrySource) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifExperimentFeatDetecMethod(Set<MIFExperimentFeatDetecMethod>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifExperimentFeatDetecMethod(MIFExperimentFeatDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifExperimentInterDetecMethod(Set<MIFExperimentInterDetecMethod>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifExperimentInterDetecMethod(MIFExperimentInterDetecMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifExperimentPartIdentMethod(Set<MIFExperimentPartIdentMethod>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifExperimentPartIdentMethod(MIFExperimentPartIdentMethod) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifFeatureFeatDetMeth(MIFFeatureFeatDetMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifFeatureFeatDetMeth(Set<MIFFeatureFeatDetMeth>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifFeatureFeatureRange(Set<MIFFeatureFeatureRange>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifFeatureFeatureType(MIFFeatureFeatureType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifFeatureFeatureType(Set<MIFFeatureFeatureType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifInferredInteractionParticipant(Map<MIFInferredInteractionParticipantPK, MIFInferredInteractionParticipant>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setMIFInferredInteractionParticipantPK(MIFInferredInteractionParticipantPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
setmIFInferredInteractionParticipantPK(MIFInferredInteractionParticipantPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
setMifInteractionInferredInteraction(Set<MIFInteractionInferredInteraction>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifInteractionInferredInteraction(MIFInteractionInferredInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
setMifInteractionInferredInteraction(MIFInteractionInferredInteraction) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMIFInteractionInferredInteractionWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
setMifInteractionInteractionType(Set<MIFInteractionInteractionType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifInteractionInteractionType(MIFInteractionInteractionType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifInteractionParticipant(Set<MIFInteractionParticipant>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setMifInteractionParticipant(MIFInteractionParticipant) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
setmIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setmIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setmIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setmIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
setmIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMIFInteractionParticipantWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifInteractorInteractorType(Set<MIFInteractorInteractorType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifInteractorInteractorType(MIFInteractorInteractorType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setmIFOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherAlias(Set<MIFOtherAlias>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setmIFOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifOtherAttribute(Set<MIFOtherAttribute>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherAvailability(Map<MIFOtherAvailabilityPK, MIFOtherAvailability>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setmIFOtherAvailabilityPK(MIFOtherAvailabilityPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
setMIFOtherAvailabilityPK(MIFOtherAvailabilityPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
setMifOtherBibRef(Set<MIFOtherBibRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setmIFOtherBibRef(Set<MIFOtherBibRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setMifOtherBibref(MIFOtherBibRef) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherBibref(MIFOtherBibRef) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifOtherBioSourceType(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherBioSourceType(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherBioSourceType(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherBioSourceType(Set<MIFOtherBioSourceType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherBioSourceType(Set<MIFOtherBioSourceType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifOtherBioSourceType(Set<MIFOtherBioSourceType>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherBioSourceType(MIFOtherBioSourceType) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setmIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setmIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setmIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMIFOtherBioSourceTypeWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherConfidence(Set<MIFOtherConfidence>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherConfidence(Set<MIFOtherConfidence>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherConfidence(Set<MIFOtherConfidence>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifOtherConfidence(MIFOtherConfidence) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setmIFOtherExperimentRefPK(MIFOtherExperimentRefPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMIFOtherExperimentRefPK(MIFOtherExperimentRefPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setmIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMIFOtherWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifOtherWIDExperimentRef(Map<MIFOtherExperimentRefPK, MIFOtherExperimentRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setmIFOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherXRef(MIFOtherXRef) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherXRef(Set<MIFOtherXRef>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherXRefGO(MIFOtherXRefGO) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherXRefGO(Set<MIFOtherXRefGO>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherXRefPubMed(MIFOtherXRefPubMed) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherXRefPubMed(Set<MIFOtherXRefPubMed>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherXRefRefSeq(MIFOtherXRefRefSeq) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherXRefRefSeq(Set<MIFOtherXRefRefSeq>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setMifOtherXRefUniprot(MIFOtherXRefUniprot) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setMifOtherXRefUniprot(Set<MIFOtherXRefUniprot>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setMifParticipantBiologicalRole(Set<MIFParticipantBiologicalRole>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifParticipantBiologicalRole(MIFParticipantBiologicalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifParticipantExperimentalInteractor(MIFParticipantExperimentalInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setMifParticipantExperimentalInteractor(MIFParticipantExperimentalInteractor) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifParticipantExperimentalPreparation(Set<MIFParticipantExperimentalPreparation>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifParticipantExperimentalPreparation(MIFParticipantExperimentalPreparation) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifParticipantExperimentalRole(Set<MIFParticipantExperimentalRole>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifParticipantExperimentalRole(MIFParticipantExperimentalRole) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifParticipantFeature(Set<MIFParticipantFeature>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifParticipantFeature(MIFParticipantFeature) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setmIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setMIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setmIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setMIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setmIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMIFParticipantFeatureWID(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setMifParticipantParameter(Map<MIFParticipantParameterPK, MIFParticipantParameter>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setMifParticipantParameter(Map<MIFParticipantParameterPK, MIFParticipantParameter>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMIFParticipantParameterPK(MIFParticipantParameterPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setmIFParticipantParameterPK(MIFParticipantParameterPK) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setMifParticipantPartIdentMeth(Set<MIFParticipantPartIdentMeth>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setMifParticipantPartIdentMeth(MIFParticipantPartIdentMeth) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setMIMNumber(BigInteger) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setMIMNumber(BigInteger) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setMinorVersion(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setModelEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setModelEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setModelEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setModelled(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setModelLength(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setModelStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setModelStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setModelStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setModificationDate(Date) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setModified(Date) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setModified(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setMolecule(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setMonth(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setMouseCorr(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setMsvLambda(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setMsvMu(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setName(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setName(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
setName(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
setName(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's name
setName(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setName(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
setName(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Alt
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Product
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
Sets the value of the name property.
setName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setName(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setName(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setName(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
setName(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
setName(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setName(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
setName(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
setName(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTable
Set the table's name
setName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column's name
setName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Set the index's name
setName(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Set the column's name
setNameAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setNameClass(TaxonomySynonymNameClass) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
setNameClass(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
setNameSpace(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setNegative(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setNN(boolean) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column as NN
setNomenclatureStatus(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setNoSeqs(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setNote(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setNoteEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setNumber(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setNumber(long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setNumber(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setNumber(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the number property.
setNumber(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column's number
setNumber(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Set the index's number
setNumber(int) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Set the column's number
setNumberArchs(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberArchs(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setNumberArchs(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setNumberMeta(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberNcbi(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberRegions(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setNumberSequences(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setNumberShuffledHits(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberSpecies(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberSpecies(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setNumberSpecies(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setNumberStructures(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumberStructures(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setNumberStructures(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setNumDistinctRegions(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setNumFull(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumProteins(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setNumSeed(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setNumTotalRegions(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setObserved(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
setOmim(OMIM) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
setOmim(Set<OMIM>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setOmimAVs(Set<OMIMAV>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOMIMCDPK(OMIMCDPK) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
setOmimCDs(Map<OMIMCDPK, OMIMCD>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOMIMCNPK(OMIMCNPK) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
setOmimCNs(Map<OMIMCNPK, OMIMCN>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOmimCS(OMIMCS) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
setOmimCSDatas(Set<OMIMCSData>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
setOmimCSs(Set<OMIMCS>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOmimcsWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
setOMIMEDPK(OMIMEDPK) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
setOmimEDs(Map<OMIMEDPK, OMIMED>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setoMIMGeneMaps(Set<OMIMGeneMap>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
setoMIMGeneMaps(Set<OMIMGeneMap>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setOmimId(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOmimId(BigInteger) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setoMIMMethods(Set<OMIMMethod>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setoMIMMorbidMaps(Set<OMIMMorbidMap>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setOmimRFs(Set<OMIMRF>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOmimSAs(Set<OMIMSA>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOMIMTIPK(OMIMTIPK) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
setOmimTIs(Map<OMIMTIPK, OMIMTI>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOMIMTXPK(OMIMTXPK) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
setOmimTXs(Map<OMIMTXPK, OMIMTX>) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
setOmimWid(long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
setOntology(Set<Ontology>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
setOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
setOntology(Set<Ontology>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setOntologyAlternativeId(Map<OntologyAlternativeIdPK, OntologyAlternativeId>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyAlternativeIdPK(OntologyAlternativeIdPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
setOntologyhasOntologySynonym(Map<OntologyhasOntologySynonymPK, OntologyhasOntologySynonym>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyhasOntologySynonym(Map<OntologyhasOntologySynonymPK, OntologyhasOntologySynonym>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
setOntologyhasOntologySynonymPK(OntologyhasOntologySynonymPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
setOntologyIsA(Map<OntologyIsAPK, OntologyIsA>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyIsAPK(OntologyIsAPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
setOntologyPMID(Map<OntologyPMIDPK, OntologyPMID>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyPMIDPK(OntologyPMIDPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
setOntologyRelation(Map<OntologyRelationPK, OntologyRelation>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyRelationPK(OntologyRelationPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
setOntologySubset(Set<OntologySubset>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologySynonym(OntologySynonym) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
setOntologySynonymWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
setOntologyToConsider(Map<OntologyToConsiderPK, OntologyToConsider>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOntologyToConsiderPK(OntologyToConsiderPK) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
setOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
setOntologyXRef(Set<OntologyXRef>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Availability
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Entry
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Feature
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
Set the open value
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Participant
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Source
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Xref
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Entry
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Comment
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Conflict
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Feature
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Gene
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Interactant
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Isoform
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Keyword
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Location
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Organism
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Reference
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setOpen(boolean) - Method in class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
 
setOrder(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Set the column's order
setOrderAdded(short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
setOrderAdded(short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
setOrderNumber(int) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
setOrderNumber(int) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
setOrg(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setOrg(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the org property.
setOrganismsDiffer(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setOrientation(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setOrientation(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setOriginal(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setOtherDesignations(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setOtherGeneInfoWID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
setOtherOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
setOtherOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
setOtherParams(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setOtherParams(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setOtherPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setOtherWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setOutput(PrintStream) - Method in class org.jbiowh.core.logger.VerbLogger
Set the PrintStream who will be used to print the messages
setParentTaxId(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setParticipant(int) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
setParticipantType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
setPartner(int) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setPartner(int) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setPartner(int) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setPartner(int) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setPasswd(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Set the MySQL DB password
setPasswd(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set the MySQL DB password
setPdbEndIcode(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPdbId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setPdbInsertCode(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPdbRes(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPdbResEnd(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPdbResStart(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPdbSeqNumber(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPdbStartIcode(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPercentageId(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setPfamA(Set<PfamAbioWH>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
setPfamA(Set<PfamAbioWH>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setPfamA(PfamAbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
setPfamAacc(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamADatabaseLinkses(Set<PfamADatabaseLinks>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamAhasPfamLiteratureReferences(Map<PfamAhasPfamLiteratureReferencesPK, PfamAhasPfamLiteratureReferences>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamAhasPfamLiteratureReferences(Map<PfamAhasPfamLiteratureReferencesPK, PfamAhasPfamLiteratureReferences>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setPfamAhasPfamLiteratureReferencesPK(PfamAhasPfamLiteratureReferencesPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
setPfamAid(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamAInsignificant(Set<PfamAbioWH>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setPfamANCBIRegs(Set<PfamANCBIReg>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamAPDBRegs(Set<PfamAPDBReg>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setPfamArchitectures(Set<PfamArchitecture>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamArchitectures(Set<PfamArchitecture>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setPfamARegFullInsignificant(PfamARegFullInsignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
setPfamARegFullInsignificants(Set<PfamARegFullInsignificant>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamARegFullSignificant(PfamARegFullSignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPfamARegFullSignificant(PfamARegFullSignificant) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
setPfamARegFullSignificants(Set<PfamARegFullSignificant>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamARegFullSignificantWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setPfamARegSeed(Map<PfamARegSeedPK, PfamARegSeed>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamARegSeedPK(PfamARegSeedPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
setPfamASignificant(Set<PfamAbioWH>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setPfamAWID(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setPfamAWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
setPfamB(PfamBbioWH) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setPfamBacc(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setPfamBid(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setPfamBRegs(Set<PfamBReg>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setPfamBWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setPfamClanDatabaseLinkses(Set<PfamClanDatabaseLinks>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setPfamClans(PfamClans) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setPfamClans(PfamClans) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
setPfamClanses(Set<PfamClans>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamClanses(Set<PfamClans>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setPfamClanshasPfamLiteratureReferences(Map<PfamClanshasPfamLiteratureReferencesPK, PfamClanshasPfamLiteratureReferences>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setPfamClanshasPfamLiteratureReferences(Map<PfamClanshasPfamLiteratureReferencesPK, PfamClanshasPfamLiteratureReferences>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setPfamClanshasPfamLiteratureReferencesPK(PfamClanshasPfamLiteratureReferencesPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
setPfamClansWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setPfamClansWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
setPfamCompleteProteomes(PfamCompleteProteomes) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
setPfamCompleteProteomesWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
setPfamContextRegions(Set<PfamContextRegions>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamInterpros(Set<PfamInterpro>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamLiteratureReferences(PfamLiteratureReferences) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
setPfamLiteratureReferences(PfamLiteratureReferences) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
setPfamLiteratureReferencesWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
setPfamLiteratureReferencesWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
setPfamNestedLocationses(Set<PfamNestedLocations>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamPDB(PfamPDB) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPfamPDBResidueDatas(Set<PfamPDBResidueData>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setPfamPDBWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPfamProteomeRegions(Map<PfamProteomeRegionsPK, PfamProteomeRegions>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPfamProteomeRegions(Map<PfamProteomeRegionsPK, PfamProteomeRegions>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setPfamProteomeRegionsPK(PfamProteomeRegionsPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
setPfamSeqhasProtein(PfamSeqhasProtein) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setPfamSeqhasProtein(PfamSeqhasProtein) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setPfamSeqhasProteinPK(PfamSeqhasProteinPK) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
setPfamSeqhasUniProtId(PfamSeqhasUniProtId) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
setPfamseqRes(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPfamseqSeqNumber(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setPFrom(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setPharmacology(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setPK(boolean) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column as PK
setPLength(int) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setPmid(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setPmid(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
setPmid(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
setPmid(Map<TaxonomyPMIDPK, TaxonomyPMID>) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setPmid(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
setPosition(Integer) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setPosition(Integer) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setPosition(Integer) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setPosition(Integer) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setPosition(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setPositionEnd(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setPositionStart(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setPositionStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setPrecursor(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setPrecursor(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setPreviousId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setPreviousId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setPreviousWID(long) - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
Set the WidTable's previous Id
setPrimaryRef(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setPrimaryRef(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setPrimaryRef(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setPrimaryRef(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setPrimaryRef(Boolean) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setProduct(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setProtein(Set<Protein>) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
setProtein(Protein) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
setProteinAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setProteinAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setProteinAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
setProteinAccessionNumber(Map<ProteinAccessionNumberPK, ProteinAccessionNumber>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinAccessionNumberPK(ProteinAccessionNumberPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
setProteinAccessionVersion(Integer) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setProteinAsCarriers(Set<Protein>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setProteinAsEnzyme(Set<Protein>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setProteinAsTransporters(Set<Protein>) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setProteinBinding(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setProteinBioCyc(Map<ProteinBioCycPK, ProteinBioCyc>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinBioCycPK(ProteinBioCycPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
setProteinComment(Set<ProteinComment>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setProteinComment(ProteinComment) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setProteinCommentConflict(Map<ProteinCommentConflictPK, ProteinCommentConflict>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentConflictPK(ProteinCommentConflictPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
setProteinCommentEvent(Map<ProteinCommentEventPK, ProteinCommentEvent>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentEventPK(ProteinCommentEventPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
setProteinCommentInteract(Set<ProteinCommentInteract>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentInteractPK(ProteinCommentInteractPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
setProteinCommentIsoform(Set<ProteinCommentIsoform>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentIsoform(ProteinCommentIsoform) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
setProteinCommentIsoform(ProteinCommentIsoform) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
setProteinCommentIsoformWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
setProteinCommentIsoformWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
setProteinCommentLink(Map<ProteinCommentLinkPK, ProteinCommentLink>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentLinkPK(ProteinCommentLinkPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
setProteinCommentSubCellularLocation(Set<ProteinCommentSubCellularLocation>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
setProteinCommentWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setProteinDBReference(Set<ProteinDBReference>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinDBReference(ProteinDBReference) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
setProteinDBReferenceProperty(Map<ProteinDBReferencePropertyPK, ProteinDBReferenceProperty>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setProteinDBReferencePropertyPK(ProteinDBReferencePropertyPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
setProteinDBReferenceWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
setProteinDIP(Map<ProteinDIPPK, ProteinDIP>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinDIPPK(ProteinDIPPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
setProteinDrugBank(Map<ProteinDrugBankPK, ProteinDrugBank>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinDrugBankPK(ProteinDrugBankPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
setProteinEC(Map<ProteinECPK, ProteinEC>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinECPK(ProteinECPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
setProteinFeature(Set<ProteinFeature>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinFeature(ProteinFeature) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
setProteinFeatureVariation(Set<ProteinFeatureVariation>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setProteinFeatureWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
setProteinGi(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setProteinGi(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setProteinhasProteinKeyword(Map<ProteinhasProteinKeywordPK, ProteinhasProteinKeyword>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinhasProteinKeyword(Map<ProteinhasProteinKeywordPK, ProteinhasProteinKeyword>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
setProteinhasProteinKeywordPK(ProteinhasProteinKeywordPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
setProteinInsignificant(Set<Protein>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setProteinIntAct(Map<ProteinIntActPK, ProteinIntAct>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinIntActPK(ProteinIntActPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
setProteinIsoformId(Map<ProteinIsoformIdPK, ProteinIsoformId>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setProteinIsoformIdPK(ProteinIsoformIdPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
setProteinIsoformName(Map<ProteinIsoformNamePK, ProteinIsoformName>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setProteinIsoformNamePK(ProteinIsoformNamePK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
setProteinKEGG(Map<ProteinKEGGPK, ProteinKEGG>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinKEGGPK(ProteinKEGGPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
setProteinKeyword(ProteinKeyword) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
setProteinKeywordWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
setProteinLongName(Set<ProteinLongName>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinMINT(Map<ProteinMINTPK, ProteinMINT>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinMINTPK(ProteinMINTPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
setProteinName(Map<ProteinNamePK, ProteinName>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinNameDef(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setProteinNamePK(ProteinNamePK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
setProteinOtherLocation(Set<ProteinOtherLocation>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinPDB(Map<ProteinPDBPK, ProteinPDB>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinPDBPK(ProteinPDBPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
setProteinPFAM(Map<ProteinPFAMPK, ProteinPFAM>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinPFAMPK(ProteinPFAMPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
setProteinPMID(Map<ProteinPMIDPK, ProteinPMID>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setProteinPMIDPK(ProteinPMIDPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
setProteinRefSeqPK(ProteinRefSeqPK) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
setProteinSignificant(Set<Protein>) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
setProteinWID(BigInteger) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
setProteinWID(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
setPTo(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setPTTFile(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setRank(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setrClass(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setRClass(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setReaction(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setReaction(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Sets the value of the reaction property.
setRef(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setReference(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setReference(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
setRefType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setRefType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setRefType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setRefType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setRefType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setRefTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setRefTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setRefTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setRefTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setRefTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setRegionId(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setRelationship(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setRelationsToNull() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setReleaseDate(Date) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's release date
setReleaseDate(Date) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setReleaseValue(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setRemark(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setRemark(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setRemark(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setResidueCoverage(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setResolution(BigDecimal) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setResource(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
setResource(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
setResultPanel(ResultPanel) - Method in class org.jbiowh.gui.component.panel.result.ResultPanelFactory
Set the ResultPanel
setRNANucleotideAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setrNANucleotideAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setRNANucleotideAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setRNANucleotideAccessionVersion(Integer) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setRNANucleotideGi(BigInteger) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setRoute(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setRouteOfElimination(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setRunlinks(boolean) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the runlinks flag.
setSa(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
setScope(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
setScore(Double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setScrollerFor(JMenu) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a menu to be scrolled with the default number of items to display at a time and the default scrolling interval.
setScrollerFor(JPopupMenu) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a popup menu to be scrolled with the default number of items to display at a time and the default scrolling interval.
setScrollerFor(JMenu, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a menu to be scrolled with the default number of items to display at a time and the specified scrolling interval.
setScrollerFor(JPopupMenu, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a popup menu to be scrolled with the default number of items to display at a time and the specified scrolling interval.
setScrollerFor(JMenu, int, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a menu to be scrolled, with the specified number of items to display at a time and the specified scrolling interval.
setScrollerFor(JPopupMenu, int, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a popup menu to be scrolled, with the specified number of items to display at a time and the specified scrolling interval.
setScrollerFor(JMenu, int, int, int, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a menu to be scrolled, with the specified number of items to display in the scrolling region, the specified scrolling interval, and the specified numbers of items fixed at the top and bottom of the menu.
setScrollerFor(JPopupMenu, int, int, int, int) - Static method in class org.jbiowh.gui.component.popup.MenuScroller
Registers a popup menu to be scrolled, with the specified number of items to display in the scrolling region, the specified scrolling interval, and the specified numbers of items fixed at the top and bottom of the popup menu.
setSearchMethod(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSecondary(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setSecondary(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setSecondary(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setSecondary(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setSecondary(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setSeedConsensus(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSeedSource(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSeq(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setSeq(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setSeqEnd(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setSeqEnd(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setSeqID(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
setSeqLength(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setSeqModified(Date) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setSeqRef(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setSeqResource(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setSeqStart(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setSeqStart(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setSeqType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setSequence(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setSequence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setSequenceBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setSequenceBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setSequenceBitsScore(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setSequenceCoverage(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setSequenceEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setSequenceEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setSequenceEvalueScore(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setSequenceGA(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSequenceNC(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSequenceTC(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setSeqVersion(Short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setSeqVersion(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setSeqVersion(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
setSerial(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setSource(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setSource(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setSourceId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setSpecies(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setsQLTableViewPanel(SQLTableViewPanel) - Method in class org.jbiowh.gui.component.panel.result.ResultPanelFactory
Set the SQL Table view panel
setStart(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setStartFullName(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setStartPositionOnTheGenomicAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setStartShortLabel(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setStatus(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
setStatus(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's status
setStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
setStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setStatus(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.EvidencedStringType
 
setStrand(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setStrength(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setSubstructure(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
setSymbol(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setSymbolFromNomenclature(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setSynonym(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
setSynonym(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
setSynonym(Map<TaxonomySynonymPK, TaxonomySynonym>) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setSynonym(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
setSynonyms(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
setSynthesisRef(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setSySName(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
setTableDimensions() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Set the table dimensions
setTableDimensions() - Method in class org.jbiowh.gui.datasets.pathway.reaction.KEGGReactionListView
 
setTag(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
setTagname(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
setTagname(String) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
setTaxId(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setTaxID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setTaxId(long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setTaxId(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setTaxId(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setTaxId(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setTaxonomy(Taxonomy) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
setTaxonomyDivisionWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setTaxonomyGenCodeWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setTaxonomyHost(Set<Taxonomy>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setTaxonomyMCGenCodeWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setTaxonomyPMIDPK(TaxonomyPMIDPK) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
setTaxonomySynonymNameClassWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
setTaxonomySynonymPK(TaxonomySynonymPK) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
setTaxonomyWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
setTaxonomyWID(long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
setTempdir(String) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the temporal directory use to parse the data source
setTempdirectory(String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Set the temporal directory to create the files
setTerm(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setTermAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
setText(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setText(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
setTextEvidence(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setTextStatus(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setTi(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
setTitle(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setTitle(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setTitle(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setTitle(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setTitle(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
Sets the value of the title property.
setToConsiderOntology(Ontology) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
setToConsiderOntologyWID(long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
setTotalAaCovered(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setTotalAaLength(long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setTotalGenomeProteins(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setTotalSeqsCovered(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setToxicity(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setTreeOrder(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setTreeOrder(Integer) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setTreeOrder(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
setTx(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setTx(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
setType(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setType(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setType(String) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the data source type
setType(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
setType(String) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
Sets the value of the type property.
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the type property.
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
Sets the value of the type property.
setType(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
Sets the value of the type property.
setType(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setType(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
setType(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setType(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
setType(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setType(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column's type
setType(String) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Set the index's type
setTypeAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setTypeExample(int) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setTypeId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
setTypeOfGene(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setTypes(Class[]) - Method in class org.jbiowh.gui.component.table.model.EditCellTableModel
Set the class types for each column
setUncertainty(Float) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setUniGene(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
setUniProtId(String) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
setUniProtKBProteinAccession(String) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
setUniRefEntry(UniRefEntry) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
setUniRefEntry(UniRefEntry) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setUniRefEntry(Set<UniRefEntry>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setUniRefEntryProperty(Set<UniRefEntryProperty>) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setUniRefEntryWID(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
setUniRefEntryWID(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setUniRefMember(Set<UniRefMember>) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setUniRefMember(UniRefMember) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
setUniRefMember(Set<UniRefMember>) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setUniRefMemberProperty(Set<UniRefMemberProperty>) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setUniRefMemberWID(long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
setUniSTSID(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
setUnit(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setUnit(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setUnitAc(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
setUnparse(Set<TaxonomyUnParseCitation>) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setUpdated(Date) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setUpdated(Date) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setUpdated(Date) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setUpdated(Date) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setUQ(boolean) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Set the column as UQ
setUri(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
setUrl(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
setUrl(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
setUrl(String) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
setUrl(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Set the MySQL DB URL
setUrl(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set the MySQL DB URL
setUser(String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
Set the MySQL DB user
setUser(String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
Set the MySQL DB user
setValue(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setValue(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setValue(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
setValue(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
Sets the value of the value property.
setValue(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
setValue(String) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.ConstrainsTableModel
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableColumnModel
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableIndexModel
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.CreateTableModel
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.ExtendedListTableModel
 
setValueAt(Object, int, int) - Method in class org.jbiowh.gui.component.table.model.ListTableModel
 
setValueVal(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setVariation(String) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
setVersion(Short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setVersion(Short) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setVersion(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setVersion(String) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's version
setVersion(Integer) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setVersion(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setVersion(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setVersion(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setVersion(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setVersion(String) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setVersion(Integer) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setVersion(String) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
 
setVisible() - Method in class org.jbiowh.gui.component.panel.AbstractDataSetView
Set the panel visible
setVisible() - Method in class org.jbiowh.gui.component.panel.ConstrainPanel
 
setVisible() - Method in class org.jbiowh.gui.component.panel.HomePanel
 
setVisible() - Method in class org.jbiowh.gui.component.panel.list.AbstractListView
Show the AbstractListView panel
setVisible() - Method in class org.jbiowh.gui.component.panel.SearchPanel
 
setVisible() - Method in class org.jbiowh.gui.component.panel.sql.SQLBrowsePanel
Shows the SQLBrowsePanel
setVisible() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Set the SQLEditorPanel visible
setVisible() - Method in class org.jbiowh.gui.datasets.EntityParserViewProxy
Set the panel visible
setVisible(Object, JComponent) - Method in class org.jbiowh.gui.datasets.ListViewProxy
Creates the ListView object to show the results
setViterbiLambda(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setViterbiMu(double) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setVolumeOfDistribution(String) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
setWid(Long) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
setWid(Long) - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
setWid(Long) - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
setWid(long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
setWid(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
setWid(Long) - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
setWid(Long) - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
Set the DataSet's Id
setWid(Long) - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
Set the WidTable's Id
setWid(Long) - Method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Set the WID value
setWid(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
setWid(Long) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
setWid(Long) - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
setWid(long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
setWid(Long) - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
setWid(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
setWid(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
setWid(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
setWid(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
setWid(Long) - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
setWidth(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setWidth(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the width property.
setX(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setX(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the x property.
setXsdfiledef(String) - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Set the Xsdfiledef parameter
setY(Integer) - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
setY(String) - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
Sets the value of the y property.
setYear(String) - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
showPopop(MouseEvent) - Method in class org.jbiowh.gui.component.panel.result.ResultPanel
 
showPopop(MouseEvent) - Method in class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
 
showPopop(MouseEvent) - Method in class org.jbiowh.gui.component.panel.TreeViewPanel
Show the popup in the tree view
size() - Method in class org.jbiowh.core.datasets.gene.utils.Chromosome
Return the amount of genes on the chromosome
SOURCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PropertyTypeTags
 
Source - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Source Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Source() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Source
This constructor initialize the WH file manager and the WH DataSet manager
SourceTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Source Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SourceTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.SourceTags
 
split(String, long, String) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.utility.DrugBankSplitReference
This method split the DrugBank reference and print it on the relational table
splitField(PrintWriter, String, String, String, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
This metho split the field2header field returned on the sql sentence into a string array repeating the field1header
splitField(PrintWriter, String, String, String, String, String) - Method in class org.jbiowh.core.dbms.mysql.WHMySQL
This metho split the field2header field returned on the sql sentence into a string array repeating the field1header.
splitField(PrintWriter, String, String, String, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
This metho split the field2header field returned on the sql sentence into a string array repeating the field1header
splitField(PrintWriter, String, String, String, String, String) - Method in interface org.jbiowh.core.dbms.WHDBMSFactory
This metho split the field2header field returned on the sql sentence into a string array repeating the field1header.
SQLBrowsePanel - Class in org.jbiowh.gui.component.panel.sql
This JPanel is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-08 15:29:16 +0200 (Mon, 08 Oct 2012) $ $LastChangedRevision: 273 $
SQLBrowsePanel(String, List, JComponent) - Constructor for class org.jbiowh.gui.component.panel.sql.SQLBrowsePanel
Creates new form SQLBrowsePanel
SQLConstrainException - Exception in org.jbiowh.core.dbms.sql.exception
This Class is an exception for the SQL Constrains between two non connected DataSets
SQLConstrainException(String, Throwable) - Constructor for exception org.jbiowh.core.dbms.sql.exception.SQLConstrainException
Constructs a new SQLConstrain exception with the specified detail message.
SQLConstrainException(String) - Constructor for exception org.jbiowh.core.dbms.sql.exception.SQLConstrainException
Create the SQLConstrainException
SQLDocumentFilter - Class in org.jbiowh.gui.component.panel.sql.syntax
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SQLDocumentFilter(WHDBMSFactory) - Constructor for class org.jbiowh.gui.component.panel.sql.syntax.SQLDocumentFilter
 
SQLEditorPanel - Class in org.jbiowh.gui.component.panel.sql
This JPanel is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 396 $
SQLEditorPanel(JComponent, WHDBMSFactory) - Constructor for class org.jbiowh.gui.component.panel.sql.SQLEditorPanel
Creates new form SQLEditorPanel
SQLEditorPanel.MyUndoableEditListener - Class in org.jbiowh.gui.component.panel.sql
The Document listener for the Undo and Redo process
SQLEditorPanel.MyUndoableEditListener() - Constructor for class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.MyUndoableEditListener
 
SQLEditorPanel.RedoAction - Class in org.jbiowh.gui.component.panel.sql
The RedoAction Class definition
SQLEditorPanel.RedoAction() - Constructor for class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.RedoAction
Create the Redo Action
SQLEditorPanel.UndoAction - Class in org.jbiowh.gui.component.panel.sql
The UndoAction Class definition
SQLEditorPanel.UndoAction() - Constructor for class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.UndoAction
Create the Undo Action
SQLFunctionsAndOperators - Class in org.jbiowh.gui.component.panel.sql.syntax
This Class handled the SQL Arithmetic Operators $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLReservedWords - Class in org.jbiowh.gui.component.panel.sql.syntax
This Class handled the SQL reserved words $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLSpecialChar - Class in org.jbiowh.gui.component.panel.sql.syntax
This Class handled the SQL special characters parenthesis $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLTable - Class in org.jbiowh.core.dbms.sql
This Class is the SQL Table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SQLTable() - Constructor for class org.jbiowh.core.dbms.sql.SQLTable
Creates a SQL Table object
SQLTable(String) - Constructor for class org.jbiowh.core.dbms.sql.SQLTable
Creates a SQL Table object
SQLTable(String, String) - Constructor for class org.jbiowh.core.dbms.sql.SQLTable
Creates a SQL Table object
SQLTable(String, String, SQLTableColumns) - Constructor for class org.jbiowh.core.dbms.sql.SQLTable
Creates a SQL Table object
SQLTable(String, String, SQLTableColumns, SQLTableIndexes) - Constructor for class org.jbiowh.core.dbms.sql.SQLTable
Creates a SQL Table object
SQLTableColumn - Class in org.jbiowh.core.dbms.sql
This Class is the SQL Table Column $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SQLTableColumn(String, int, String, boolean, boolean, boolean, boolean, Object) - Constructor for class org.jbiowh.core.dbms.sql.SQLTableColumn
Creates a table column
SQLTableColumns - Class in org.jbiowh.core.dbms.sql
This Class is the columns handler in a SQLTable $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SQLTableColumns() - Constructor for class org.jbiowh.core.dbms.sql.SQLTableColumns
Creates the columns handler in a SQLTable
SQLTableException - Exception in org.jbiowh.gui.sqltables.exception
This Class is the Exception to be use during the table creating process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLTableException(String) - Constructor for exception org.jbiowh.gui.sqltables.exception.SQLTableException
 
SQLTableIndex - Class in org.jbiowh.core.dbms.sql
This Class is the SQL Table Index $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
SQLTableIndex(String, int, String) - Constructor for class org.jbiowh.core.dbms.sql.SQLTableIndex
Create a SQL index for a table
SQLTableIndex(String, int, String, ConcurrentHashMap<String, SQLTableIndexColumn>) - Constructor for class org.jbiowh.core.dbms.sql.SQLTableIndex
Create a SQL index for a table
SQLTableIndexColumn - Class in org.jbiowh.core.dbms.sql
This Class is the SQLtable index colum $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLTableIndexColumn(String, int, String, String) - Constructor for class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
Create the SQL Table Index Column
SQLTableIndexes - Class in org.jbiowh.core.dbms.sql
This Class handled the indexes in a table $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLTableIndexes() - Constructor for class org.jbiowh.core.dbms.sql.SQLTableIndexes
Creates the indexes handler in a SQLTable
SQLTableViewPanel - Class in org.jbiowh.gui.component.panel.sql
This Class is the SQL Table View panel $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 231 $
SQLTableViewPanel(JTabbedPane) - Constructor for class org.jbiowh.gui.component.panel.sql.SQLTableViewPanel
 
start(Collection, String) - Method in class org.jbiowh.core.utility.utils.ParseFiles
Start the Parser files factory setting the temporal directory and the list of files names
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.BondType
This is the method for the Header on GO
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Drug
This is the method for the Header on GO
startElement(String, String, String, Attributes) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.DrugBankDefaultHandler
 
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.MultipleFieldXMLParser
This is the method for the Header on GO
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Partner
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
This is the method for the Header on GO
startElement(String, String, String, Attributes) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOOntologyDefaultHandler
 
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AttributeList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Availability
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.AvailabilityList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Bibref
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.BioSourceType
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Confidence
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ConfidenceList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVType
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.CVTypeList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Entry
This is the startElement method
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.EntrySet
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractor
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentalInteractorList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentDescription
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ExperimentRefList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Feature
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRange
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.FeatureRangeList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.HostOrganismList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteraction
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InferredInteractionList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interaction
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractionList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Interactor
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.InteractorList
This is the startElement method
startElement(String, String, String, Attributes) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.MIF25DefaultHandler
 
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Names
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.OpenCvType
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Parameter
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParameterList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Participant
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.ParticipantList
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Source
This is the startElement method
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.ppi.parser.xml.Xref
This is the startElement method
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.Entry
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.MemberType
This is the method for the Header on GO
startElement(String, String, String, Attributes) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefDefaultHandler
 
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.protclust.parser.xml.UniRefXML
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Comment
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Conflict
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.DBReference
This is the method for the Header on GO
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Entry
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Feature
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Gene
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.GeneLocation
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Interactant
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Isoform
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Keyword
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Location
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Organism
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.ProteinType
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Reference
This is the method for the Header on GO
startElement(String, int, Attributes) - Method in class org.jbiowh.core.datasets.protein.parser.xml.Sequence
This is the method for the Header on GO
startElement(String, int, Attributes, long) - Method in class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
This is the method for the Header on GO
startElement(String, String, String, Attributes) - Method in class org.jbiowh.core.datasets.protein.parser.xml.UniprotDefaultHandler
 
startElementGOHeader(String, int) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOHeader
This is the method for the Header on GO
startElementGOTerm(String, int, Attributes) - Method in class org.jbiowh.core.datasets.ontology.parser.xml.GOTerm
This is the method for the Header on GO
startTransfer(WHDBMSFactory, Object) - Method in class org.jbiowh.core.dbms.transfer.TransferData
 
STRAND - Variable in class org.jbiowh.core.datasets.gene.search.SearchGenePTT
 
STRENGTH - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DosagesTags
 
STRUCTURE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
SubCellularLocation - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML SubCellularLocation tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
SubCellularLocation() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.SubCellularLocation
This constructor initialize the WH file manager and the WH DataSet manager
SubCellularLocationTags - Class in org.jbiowh.core.datasets.protein.parser.xml.tags
This Class storage the XML SubCellularLocation tags on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SubCellularLocationTags() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.tags.SubCellularLocationTags
 
substrate - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
Substrate - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Substrate XML parser from JAXB for KGML file format
Substrate() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Substrate
 
SUBSTRATE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
SUBSTRUCTURE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
SUBSTRUCTURES - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
subtype - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
 
Subtype - Class in org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml
This is the Subtype XML parser from JAXB for KGML file format
Subtype() - Constructor for class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
 
SYMBOL - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
SYNONYM - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SynonymsTags
 
SYNONYM - Variable in class org.jbiowh.core.datasets.drug.drugbank.search.SearchDrugBank
 
SYNONYM - Variable in class org.jbiowh.core.datasets.gene.search.SearchGeneInfo
 
SYNONYM - Variable in class org.jbiowh.core.datasets.ontology.search.SearchOntology
 
SYNONYM - Variable in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
SYNONYMS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.SynonymsTags
 
SynonymsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Synonyms XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
SYNTHESISREFERENCE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
SYSNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
SYSNAME - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGEnzyme
 

T

TabbedPanelCloseActionListener - Class in org.jbiowh.gui.actions.tabbedpanel
This Class is handled the ActionListernet from close the TabbedPanel $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 270 $
TabbedPanelCloseActionListener(JComponent) - Constructor for class org.jbiowh.gui.actions.tabbedpanel.TabbedPanelCloseActionListener
 
tableChanged(TableModelEvent) - Method in class org.jbiowh.gui.sqltables.listener.CreateTableColumnListener
 
tableChanged(TableModelEvent) - Method in class org.jbiowh.gui.sqltables.listener.CreateTableIndexlListener
 
tableChanged(TableModelEvent) - Method in class org.jbiowh.gui.sqltables.listener.CreateTableListener
 
TAGS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PartnerTags
 
TARGET - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TargetsTags
 
TargetBondTypeTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the TargetBondType XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TARGETS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TargetsTags
 
TargetsTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Targets XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TAXID - Variable in class org.jbiowh.core.datasets.taxonomy.search.SearchTaxonomy
 
TAXONOMY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
Taxonomy - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the Taxonomy XML parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Taxonomy() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.Taxonomy
This constructor initialize the WH file manager and the WH DataSet manager
Taxonomy - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the Taxonomy entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-09-18 14:59:00 +0200 (Tue, 18 Sep 2012) $ $LastChangedRevision: 396 $
Taxonomy() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
Taxonomy(Long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
Taxonomy(Long, long, long, long, long, long, long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
TAXONOMY - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
TAXONOMY_HAS_TAXONOMYUNPARSECITATION - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
TaxonomyDataSetView - Class in org.jbiowh.gui.datasets.taxonomy
This Class handled the Taxonomy View $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyDataSetView(JComponent, Object) - Constructor for class org.jbiowh.gui.datasets.taxonomy.TaxonomyDataSetView
Creates new form AbstractDataSetView
TaxonomyDivision - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomyDivision entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyDivision() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
TaxonomyDivision(Long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
TaxonomyDivision(Long, int, String, String) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
TAXONOMYDIVISION - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
TaxonomyGenCode - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomyGenCode entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyGenCode() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
TaxonomyGenCode(Long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
TaxonomyGenCode(Long, int, String, String) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
TAXONOMYGENCODE - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
TaxonomyGraph - Class in org.jbiowh.core.datasets.taxonomy.utils
This class handled a Taxonomy graph $Author$ $LastChangedDate$ $LastChangedRevision$
TaxonomyGraph(int) - Constructor for class org.jbiowh.core.datasets.taxonomy.utils.TaxonomyGraph
 
TaxonomyJpaController - Class in org.jbiowh.core.datasets.taxonomy.jpa.controller
This class is the Taxonomy Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
TaxonomyJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.controller.TaxonomyJpaController
 
TaxonomyLinks - Class in org.jbiowh.core.datasets.taxonomy.parser.links
This Class create all Taxonomy external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 396 $
taxonomyList() - Method in class org.jbiowh.tools.protein.FindProteinFromTaxonomy
 
TaxonomyListView - Class in org.jbiowh.gui.datasets.taxonomy
This Class show the Taxonomy List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyListView(Collection<Taxonomy>, JComponent) - Constructor for class org.jbiowh.gui.datasets.taxonomy.TaxonomyListView
Create the Taxonomy List object
TaxonomyParser - Class in org.jbiowh.core.datasets.taxonomy.parser
This Class is the Taxonomy Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
TaxonomyParser() - Constructor for class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyParser
 
TaxonomyPMID - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomyPMID entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyPMID() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
TaxonomyPMID(TaxonomyPMIDPK) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
TaxonomyPMID(long, long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
TAXONOMYPMID - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
taxonomyPMIDPK - Variable in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
TaxonomyPMIDPK - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomyPMIDPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyPMIDPK() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
TaxonomyPMIDPK(long, long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
TaxonomySynonym - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomySynonym entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomySynonym() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
TaxonomySynonym(TaxonomySynonymPK) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
TaxonomySynonym(long, String, long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
TAXONOMYSYNONYM - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
TaxonomySynonymNameClass - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomySynonymNameClass entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomySynonymNameClass() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
TaxonomySynonymNameClass(Long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
TAXONOMYSYNONYMNAMECLASS - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
taxonomySynonymPK - Variable in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
TaxonomySynonymPK - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomySynonymPK $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomySynonymPK() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
TaxonomySynonymPK(long, String, long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
TaxonomyTables - Class in org.jbiowh.core.datasets.taxonomy.parser
This Class is the taxonomy tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is the Taxonomy XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyTags() - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TaxonomyTags
 
TaxonomyTransfer - Class in org.jbiowh.core.datasets.taxonomy.jpa.transfer
This class handled the Taxonomy transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-15 09:23:43 +0200 (Mon, 15 Oct 2012) $ $LastChangedRevision: 285 $
TaxonomyTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.transfer.TaxonomyTransfer
Create the Taxonomy transfer
TaxonomyTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.transfer.TaxonomyTransfer
Create the Taxonomy transfer
TaxonomyUnParseCitation - Class in org.jbiowh.core.datasets.taxonomy.jpa.entities
This Class is the TaxonomyUnParseCitation entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TaxonomyUnParseCitation() - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
TaxonomyUnParseCitation(Long) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
TaxonomyUnParseCitation(Long, int) - Constructor for class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
TAXONOMYUNPARSECITATION - Variable in class org.jbiowh.core.datasets.taxonomy.parser.TaxonomyTables
 
Test - Class in org.jbiowh.tools.prototypes.temp
This class is used to test something $Author: r78v10a07@gmail.com $
Test() - Constructor for class org.jbiowh.tools.prototypes.temp.Test
 
test() - Method in class org.jbiowh.tools.prototypes.temp.Test
 
TestFrame - Class in org.jbiowh.tools.prototypes.temp
 
TestFrame() - Constructor for class org.jbiowh.tools.prototypes.temp.TestFrame
Creates new form TestFrame
text - Variable in class org.jbiowh.gui.sqltables.listener.DataTypeComboBoxEditor
 
TI - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
TITLE - Variable in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
title - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Pathway
 
TITLE - Variable in class org.jbiowh.core.datasets.pathway.kegg.search.SearchKEGGPathway
 
toFasta() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
toSQLFormat() - Method in class org.jbiowh.core.dbms.sql.SQLTable
Return the SQL syntax to create the table
toSQLFormat() - Method in class org.jbiowh.core.dbms.sql.SQLTableColumn
Return the SQL syntax to create the columns
toSQLFormat(SQLTableIndexes) - Method in class org.jbiowh.core.dbms.sql.SQLTableColumns
Return the SQL syntax to create the columns in the table
toSQLFormat() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
Return the SQL syntax to create the index
toSQLFormat() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
Return the SQL syntax to create the index in the table
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIM
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMAV
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCD
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCDPK
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCN
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCNPK
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCS
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMCSData
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMED
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMEDPK
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMGeneMap
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMethod
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMMorbidMap
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMRF
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMSA
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTI
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTIPK
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTX
 
toString() - Method in class org.jbiowh.core.datasets.disease.omim.jpa.entities.OMIMTXPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAbioWH
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamADatabaseLinks
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferences
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAhasPfamLiteratureReferencesPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamANCBIReg
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamAPDBReg
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamArchitecture
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullInsignificant
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegFullSignificant
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeed
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamARegSeedPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBbioWH
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamBReg
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanDatabaseLinks
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClans
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferences
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamClanshasPfamLiteratureReferencesPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamCompleteProteomes
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamContextRegions
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamInterpro
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamLiteratureReferences
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamMarkupKey
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamNestedLocations
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamOtherReg
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDB
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamPDBResidueData
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegions
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamProteomeRegionsPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqDisulphide
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProtein
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasProteinPK
 
toString() - Method in class org.jbiowh.core.datasets.domain.pfam.jpa.entities.PfamSeqhasUniProtId
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBank
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAffectedOrganisms
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankAHFSCodes
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankATCCodes
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankBrands
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCalculatedProperties
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriers
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersActions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCarriersRef
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankCategories
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDosages
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankDrugInteractionsPK
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymes
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesActions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankEnzymesRef
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExperimentalProperties
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalIdentifiers
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankExternalLinks
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankFoodInteractions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGeneralRef
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankGroup
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankManufacturers
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankMixtures
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPackagers
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPatents
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankPrices
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankProteinSequences
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSecondAccessionNumbers
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankSynonyms
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargets
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsActions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTargetsRef
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomy
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTaxonomySubstructures
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransporters
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersActions
 
toString() - Method in class org.jbiowh.core.datasets.drug.drugbank.jpa.entities.DrugBankTransportersRef
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Accession
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2AccessionPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2Ensembl
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMID
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2PMIDPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STS
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2STSPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGene
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.Gene2UniGenePK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroup
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneGroupPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfo
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefs
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoDBXrefsPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonyms
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneInfoSynonymsPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprot
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.gene.GeneRefSeqUniprotPK
 
toString() - Method in class org.jbiowh.core.datasets.gene.jpa.entities.geneptt.GenePTT
 
toString() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
 
toString() - Method in class org.jbiowh.core.datasets.mainloader.entities.DataSet
 
toString() - Method in class org.jbiowh.core.datasets.mainloader.entities.WidTable
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.Ontology
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeId
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyAlternativeIdPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonym
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyhasOntologySynonymPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsA
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyIsAPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMID
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyPMIDPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelation
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyRelationPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySubset
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologySynonym
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsider
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyToConsiderPK
 
toString() - Method in class org.jbiowh.core.datasets.ontology.jpa.entities.OntologyXRef
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompound
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLink
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundDBLinkPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGCompoundName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.compound.KEGGRPair
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzyme
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeClass
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLink
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeDBLinkPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthology
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeOrthologyPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.enzyme.KEGGEnzymeSysName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGene
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLink
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDBLinkPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDisease
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTarget
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneDrugTargetPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthology
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.gene.KEGGGeneOrthologyPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycan
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanClass
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLink
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanDBLinkPK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.glycan.KEGGGlycanName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathway
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntry
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayEntryGraphic
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayReaction
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelation
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubType
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.pathway.KEGGPathwayRelationSubTypePK
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReaction
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.jpa.entities.reaction.KEGGReactionName
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.gene.KEGGGene
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGCompound
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGEnzyme
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGGlycan
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGReaction
 
toString() - Method in class org.jbiowh.core.datasets.pathway.kegg.parser.ligand.KEGGRPair
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCellType
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeCompartment
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFBioSourceTypeTissue
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryExperiment
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteraction
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntryInteractor
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySet
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySetEntry
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFEntrySource
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentFeatDetecMethod
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentInterDetecMethod
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFExperimentPartIdentMethod
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatDetMeth
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureRange
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFFeatureFeatureType
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipant
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInferredInteractionParticipantPK
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInferredInteraction
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionInteractionType
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractionParticipant
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFInteractorInteractorType
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAlias
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAttribute
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailability
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherAvailabilityPK
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBibRef
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherBioSourceType
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherConfidence
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRef
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherExperimentRefPK
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRef
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefGO
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefPubMed
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefRefSeq
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFOtherXRefUniprot
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantBiologicalRole
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalInteractor
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalPreparation
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantExperimentalRole
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantFeature
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameter
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantParameterPK
 
toString() - Method in class org.jbiowh.core.datasets.ppi.jpa.entities.MIFParticipantPartIdentMeth
 
toString() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
toString() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
toString() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
toString() - Method in class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.Protein
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumber
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinAccessionNumberPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCyc
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinBioCycPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinComment
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflict
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentConflictPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEvent
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentEventPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteract
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentInteractPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentIsoform
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLink
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentLinkPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinCommentSubCellularLocation
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReference
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferenceProperty
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDBReferencePropertyPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIP
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDIPPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBank
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinDrugBankPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinEC
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinECPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeature
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinFeatureVariation
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinGeneLocation
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeyword
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinhasProteinKeywordPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntAct
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIntActPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformId
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformIdPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformName
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinIsoformNamePK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGG
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKEGGPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinKeyword
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinLongName
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINT
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinMINTPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinName
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinNamePK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinOtherLocation
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDB
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPDBPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAM
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPFAMPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMID
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinPMIDPK
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeq
 
toString() - Method in class org.jbiowh.core.datasets.protein.jpa.entities.ProteinRefSeqPK
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.Taxonomy
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyDivision
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyGenCode
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMID
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyPMIDPK
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonym
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymNameClass
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomySynonymPK
 
toString() - Method in class org.jbiowh.core.datasets.taxonomy.jpa.entities.TaxonomyUnParseCitation
 
toString() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndex
 
toString() - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexColumn
 
toString() - Method in class org.jbiowh.core.utility.constrains.JPLConstrains
Return the JPLConstrain object in a String format
toString() - Method in class org.jbiowh.core.utility.jparelationship.graph.BasicEdge
 
toString() - Method in class org.jbiowh.core.utility.jparelationship.graph.HideEdge
 
toString() - Method in class org.jbiowh.core.utility.jparelationship.JpaEntitiesSelected
 
toString() - Method in class org.jbiowh.core.utility.utils.SearchFactory
 
TOXICITY - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
transfer(Object) - Method in interface org.jbiowh.core.utility.jparelationship.JpaTransfer
Start the transfer of the object to the JBioWH WHDBMS Factory.
The object can be a collection of entities or a entity.
transfer(Object) - Method in class org.jbiowh.core.utility.jparelationship.JpaTransferBackEnd
 
TransferData - Class in org.jbiowh.core.dbms.transfer
This Class is the $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
TRANSPORTER - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TransportersTags
 
TRANSPORTERS - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.TransportersTags
 
TransportersTags - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags
This class is Transporters XML Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
TreeSchemaRenderer - Class in org.jbiowh.gui.component.tree
This Class is the renderer for the Schema Tree $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
TreeSchemaRenderer() - Constructor for class org.jbiowh.gui.component.tree.TreeSchemaRenderer
 
TreeViewPanel - Class in org.jbiowh.gui.component.panel
This JPanel handled the Tree view $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-08-31 15:46:36 +0200 (Fri, 31 Aug 2012) $ $LastChangedRevision: 270 $
TreeViewPanel(String) - Constructor for class org.jbiowh.gui.component.panel.TreeViewPanel
Creates new form TreeViewPanel
TwoFieldXMLParser - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the TwoFieldXMLParser XML parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
TwoFieldXMLParser(String, String, String) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
This constructor initialize the WH file manager and the WH DataSet manager
TwoFieldXMLParser(String, String, String, String) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.TwoFieldXMLParser
This constructor initialize the WH file manager and the WH DataSet manager
TX - Variable in class org.jbiowh.core.datasets.disease.omim.parser.files.tags.OMIMTabs
 
TX - Variable in class org.jbiowh.core.datasets.disease.omim.search.SearchOMIM
 
TYPE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
type - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Entry
 
type - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
type - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Reaction
 
type - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Relation
 
TYPE - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.utility.KEGGParserFieldTags
 
TYPE - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.PropertyTags
 

U

undoableEditHappened(UndoableEditEvent) - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.MyUndoableEditListener
 
Uniprot - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class handled the XML on Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
Uniprot() - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.Uniprot
 
UniprotDefaultHandler - Class in org.jbiowh.core.datasets.protein.parser.xml
This Class is the default handler for Uniprot $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
UniprotDefaultHandler(Uniprot) - Constructor for class org.jbiowh.core.datasets.protein.parser.xml.UniprotDefaultHandler
 
uniqueKey - Variable in class org.jbiowh.gui.component.panel.AbstractDataSetView
The GUI component Id
UNIREF - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.UniRefXMLTags
 
UniRef - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is the UniRef XML $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRef() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.UniRef
 
UNIREF100 - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.UniRefXMLTags
 
UNIREF50 - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.UniRefXMLTags
 
UNIREF90 - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.UniRefXMLTags
 
UniRefDefaultHandler - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefDefaultHandler(UniRef) - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.UniRefDefaultHandler
 
UniRefEntry - Class in org.jbiowh.core.datasets.protclust.jpa.entities
This class is the UniRefEntry entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefEntry() - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
UniRefEntry(Long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
UniRefEntry(Long, String, Date, String, long, long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntry
 
UNIREFENTRY - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UNIREFENTRY_HAS_PROTEIN - Static variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UniRefEntryJpaController - Class in org.jbiowh.core.datasets.protclust.jpa.controller
This class is the UniRefEntry Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
UniRefEntryJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefEntryJpaController
 
UniRefEntryListView - Class in org.jbiowh.gui.datasets.protfam
This Class shows the UniRefEntry List $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefEntryListView(Collection<UniRefEntry>, JComponent) - Constructor for class org.jbiowh.gui.datasets.protfam.UniRefEntryListView
Create the UniRefEntry List object
UniRefEntryProperty - Class in org.jbiowh.core.datasets.protclust.jpa.entities
This class is the UniRefEntryProperty entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefEntryProperty() - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
UniRefEntryProperty(Long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
UniRefEntryProperty(Long, long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefEntryProperty
 
UNIREFENTRYPROPERTY - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UniRefEntryTransfer - Class in org.jbiowh.core.datasets.protclust.jpa.transfer
This class handled the UniRefEntry transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefEntryTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefEntryTransfer
Create the UniRefEntry transfer
UniRefEntryTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefEntryTransfer
Create the UniRefEntry transfer
UniRefLinks - Class in org.jbiowh.core.datasets.protclust.parser.links
This Class create all UniRef external relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefMember - Class in org.jbiowh.core.datasets.protclust.jpa.entities
This class is the UniRefMember entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefMember() - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
UniRefMember(Long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
UniRefMember(Long, long, long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMember
 
UNIREFMEMBER - Static variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UniRefMemberJpaController - Class in org.jbiowh.core.datasets.protclust.jpa.controller
This class is UniRefMember Jpa Controller $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
UniRefMemberJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.controller.UniRefMemberJpaController
 
UniRefMemberProperty - Class in org.jbiowh.core.datasets.protclust.jpa.entities
This class is the UniRefMemberProperty entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefMemberProperty() - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
UniRefMemberProperty(Long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
UniRefMemberProperty(Long, long) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.entities.UniRefMemberProperty
 
UNIREFMEMBERPROPERTY - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UNIREFMEMBERTEMP - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UNIREFMEMBERTEMP1 - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UNIREFMEMBERTEMP2 - Variable in class org.jbiowh.core.datasets.protclust.parser.UniRefTables
 
UniRefMemberTransfer - Class in org.jbiowh.core.datasets.protclust.jpa.transfer
This class handled the UniRefMember transfer process $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-26 16:29:19 +0100 (Mon, 26 Nov 2012) $ $LastChangedRevision: 323 $
UniRefMemberTransfer(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefMemberTransfer
Create the UniRefMember transfer
UniRefMemberTransfer(WHDBMSFactory) - Constructor for class org.jbiowh.core.datasets.protclust.jpa.transfer.UniRefMemberTransfer
Create the UniRefMember transfer
UniRefParser - Class in org.jbiowh.core.datasets.protclust.parser
This Class is the UniRef parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
UniRefParser() - Constructor for class org.jbiowh.core.datasets.protclust.parser.UniRefParser
 
UniRefProteinLink - Class in org.jbiowh.core.datasets.protclust.parser.links
This Class create the UniRef-Protein relationship tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-20 10:29:19 +0100 (Wed, 20 Mar 2013) $ $LastChangedRevision: 515 $
UniRefTables - Class in org.jbiowh.core.datasets.protclust.parser
This Class is the UniRef Tables $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefXML - Class in org.jbiowh.core.datasets.protclust.parser.xml
This Class is the UniRef start XML def $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefXML() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.UniRefXML
 
UniRefXMLTags - Class in org.jbiowh.core.datasets.protclust.parser.xml.tags
This Class is the UniRef start XMl Tags $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
UniRefXMLTags() - Constructor for class org.jbiowh.core.datasets.protclust.parser.xml.tags.UniRefXMLTags
 
UNIT - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PricesTags
 
unSelectCell(String) - Method in class org.jbiowh.gui.component.graph.EntityRelationshipDialog
 
update(Observable, Object) - Method in class org.jbiowh.core.dbms.sql.SQLTableIndexes
 
UPDATED - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
UPDATED - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.EntryTags
 
updateDataSet() - Method in class org.jbiowh.core.datasets.mainloader.DataSetFactory
Update the DataSet into the database
updateRedoState() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.RedoAction
Get the Redo state
updateUndoState() - Method in class org.jbiowh.gui.component.panel.sql.SQLEditorPanel.UndoAction
Get the Undo state
updateWIDTable() - Method in class org.jbiowh.core.datasets.mainloader.WIDFactory
Update the WID value into the database
URL - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.ExternalLinksTags
 
URL - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PackagersTags
 
useCreateQueryExecuteUpdate(String) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity using the executeUpdate sentence
useNamedQuery(String) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity
useNamedQuery(String, int[]) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity in a defined range
useNamedQuery(String, HashMap<String, Object>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity with defined parameters
useNamedQuery(String, HashMap<String, Object>, int[]) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity with defined parameters in a defined range
useNamedQueryExecuteUpdate(String) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity using the executeUpdate sentence
useNamedQueryExecuteUpdate(String, HashMap<String, Object>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity with a single result with defined parameters using the executeUpdate sentence
useNamedQuerySingleResult(String) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity with a single result
useNamedQuerySingleResult(String, HashMap<String, Object>) - Method in class org.jbiowh.core.utility.controller.AbstractJpaController
This method perform the NamedQuery over the selected entity with a single result with defined parameters

V

VALUE - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.PropertyTypeTags
 
value - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Subtype
 
VALUE - Variable in class org.jbiowh.core.datasets.protclust.parser.xml.tags.PropertyTags
 
VerbLogger - Class in org.jbiowh.core.logger
This Class is to handled the system message globally $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 515 $
VERSION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 
vertexAdded(GraphVertexChangeEvent<V>) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
vertexCount() - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Count the graph vertex
vertexRemoved(GraphVertexChangeEvent<V>) - Method in class org.jbiowh.core.utility.graph.JGraphXAdapter
 
vertexSet() - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Get the graph vertex in a collection object
vertexToString(Object, int) - Method in class org.jbiowh.core.utility.graph.BioWHGraph
Return a string with the vertex object in a format with tab in front
viewHomeTabbedPanel(WHDBMSFactory) - Method in class org.jbiowh.gui.JBioWH
 
VOLUMEOFDISTRIBUTION - Variable in class org.jbiowh.core.datasets.drug.drugbank.parser.xml.tags.DrugTags
 

W

WHDBMS - Class in org.jbiowh.core.dbms
This Class is to handled the systems DBMS connections $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-09-25 00:06:19 +0200 (Tue, 25 Sep 2012) $ $LastChangedRevision: 396 $
WHDBMSFactory - Interface in org.jbiowh.core.dbms
This interface is to handled the DBMS connections $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
WHMySQL - Class in org.jbiowh.core.dbms.mysql
This class handled the system connections using MySQL driver $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
WHMySQL(String, String, String, String) - Constructor for class org.jbiowh.core.dbms.mysql.WHMySQL
The class to handled the MySQL DBMS.
WIDFactory - Class in org.jbiowh.core.datasets.mainloader
This Class is the WID Factory to handled the WID value $Author: r78v10a07@gmail.com $ $LastChangedDate: 2013-03-19 09:38:47 +0100 (Tue, 19 Mar 2013) $ $LastChangedRevision: 396 $
WidTable - Class in org.jbiowh.core.datasets.mainloader.entities
This Class is the WIDTable entity $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
WidTable() - Constructor for class org.jbiowh.core.datasets.mainloader.entities.WidTable
Creates a WidTable entity
WidTable(Long) - Constructor for class org.jbiowh.core.datasets.mainloader.entities.WidTable
Creates a WidTable entity with Id
WidTable(Long, long) - Constructor for class org.jbiowh.core.datasets.mainloader.entities.WidTable
Creates a WidTable entity with parameters
WidTableJpaController - Class in org.jbiowh.core.datasets.mainloader.controller
This Class is the WIDTable entity JPA controller class $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
WidTableJpaController(EntityManagerFactory) - Constructor for class org.jbiowh.core.datasets.mainloader.controller.WidTableJpaController
Creates a WidTable JPA Controller and initialize the EntityManagerFactory
width - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 

X

x - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
XMLIntermedParser - Class in org.jbiowh.core.datasets.drug.drugbank.parser.xml
This class is the XMLIntermed XML Parser $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-10-03 22:11:05 +0200 (Wed, 03 Oct 2012) $ $LastChangedRevision: 270 $
XMLIntermedParser(String, String, String[]) - Constructor for class org.jbiowh.core.datasets.drug.drugbank.parser.xml.XMLIntermedParser
This constructor initialize the WH file manager and the WH DataSet manager
Xref - Class in org.jbiowh.core.datasets.ppi.parser.xml
This Class handled the XML Xref Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
Xref() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.Xref
This constructor initialize the WH file manager and the WH DataSet manager
XrefTags - Class in org.jbiowh.core.datasets.ppi.parser.xml.tags
This Class storage the XML Xref Tags on MIF25 $Author: r78v10a07@gmail.com $ $LastChangedDate: 2012-11-08 14:37:19 +0100 (Thu, 08 Nov 2012) $ $LastChangedRevision: 322 $
XrefTags() - Constructor for class org.jbiowh.core.datasets.ppi.parser.xml.tags.XrefTags
 

Y

y - Variable in class org.jbiowh.core.datasets.pathway.kegg.parser.kgml.xml.Graphics
 
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